# Patent

## Title
Tryptoline derivatives having kinase inhibitory activity and uses thereof

## Abstract

The present invention features tryptoline derivatives and related compounds having kinase inhibitory activity. The compounds of the invention, alone or in combination with other pharmaceutically active agents, can be used for treating or preventing various medical conditions, such as cancers, inflammatory disorders, or autoimmune disorders.

## Background
CROSS-REFERENCE TO RELATED APPLICATIONS
This application is a national phase of International Application No. PCT/US2013/020808, filed Jan. 9, 2013, which claims the benefit of U.S. Provisional Application Nos. 61/584,593, filed Jan. 9, 2012, and 61/715,116, filed Oct. 17, 2012, each of which is hereby incorporated by reference in its entirety.


BACKGROUND OF THE INVENTION
The present invention relates to tryptoline derivatives and related compounds having kinase inhibitory activity, as well as their therapeutic, diagnostic, and medical uses.
Bruton agammaglobulinemia tyrosine kinase (Btk or BTK) is a cytoplasmic kinase in the Tec family. Btk plays an important role in the development and regulation of lymphoid, myeloid, and mast cell lineages, such as by activating the B-cell receptor (BCR) signaling pathway, mediating cytokine receptor signaling, and participating in mast cell activation. However, activation or overactivation of Btk can contribute to or promote numerous diseases, including B-cell malignancies (e.g., Hodgkin's lymphoma, non-Hodgkin lymphoma, or chronic lymphocytic leukemia), inflammatory or autoimmune disorders (e.g., rheumatoid arthritis, systemic lupus erythematosus, or multiple sclerosis), and mast cell malignancies (e.g., pancreatic insulinoma). Thus, there is a need for new compounds that inhibit Btk and treatment methods using such compounds.
SUMMARY OF THE INVENTION
The invention features a compound having the formula:




or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof,

where
each R1, R2, R3, and R4 is, independently, N or CR5, where each R5 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted C2-6 alkenyloxy, optionally substituted C2-6 alkynyloxy, optionally substituted halo-C1-6 alkoxy, optionally substituted C1-6 alkoxy-C1-6 alkyl, optionally substituted C1-7 acyl, optionally substituted C1-7 acylamino, optionally substituted C1-7 acyloxy, optionally substituted C6-10 aryl, optionally substituted C1-6 alk-C6-10 aryl, optionally substituted amino, halo, cyano, nitro, hydroxy, or carboxyl;
A is H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, optionally substituted C1-7 acyl, optionally substituted C1-12 heterocyclyl, carboxyl, —C(O)—NRA1RA2, or —NRA1—C(O)—RA2, where each RA1 and RA2 is, independently, H, optionally substituted C1-6 alkyl, or optionally substituted C1-6 alkoxy-C1-6 alkyl, or where the combination of RA1 and RA2 can together form optionally substituted C1-12 heterocyclyl;
X is an optionally substituted C1-12 heterocyclyl (e.g., optionally substituted C1-12 heteroaryl) or an optionally substituted C6-10 aryl;
L is selected from the group consisting of optionally substituted C1-10 alkylene, optionally substituted C1-10 heteroalkylene, —O—CZ1Z2—, —CZ1Z2—O—, —S—CZ1Z2—, —CZ1Z2—S—, —NZN1—CZ1Z2—, —CZ1Z2—NZN1—, —O—, —S—, —NZN1—, —NZN1—C(O)—, and —C(O)—NZN1—, where each ZN1 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, or an N-protecting group, and where each Z1 and Z2 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl; or where the combination of Z1 and Z2 can together form oxo or optionally substituted C1-7 spirocyclyl;
each Z3a, Z3b, and Z4 is, independently, H or optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted C2-6 alkenyloxy, optionally substituted C2-6 alkynyloxy, optionally substituted halo-C1-6 alkoxy, optionally substituted C1-7 acyl, optionally substituted amino, halo, cyano, nitro, hydroxy, carboxyl, or an N-protecting group; or where the combination of Z3a and Z3b can together form oxo or optionally substituted C1-7 spirocyclyl;
each Z5a and Z5b is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted C2-6 alkenyloxy, optionally substituted C2-6 alkynyloxy, optionally substituted halo-C1-6 alkoxy, optionally substituted C1-7 acyl, optionally substituted amino, halo, cyano, nitro, hydroxy, or carboxyl (e.g., each Z5a and Z5b is, independently, H, optionally substituted C1-6 alkyl, or each Zsa and Z5b is H); and
Y is optionally substituted C1-12 heterocyclyl (e.g., optionally substituted bicyclic C1-12 heterocyclyl, optionally substituted C1-12 heteroaryl, or optionally substituted bicyclic C1-12 heteroaryl).
In some embodiments, each R1, R2, R3, and R4 is, independently, N or CR5, where each R5 is, independently, H or optionally substituted C1-6 alkyl; A is H, optionally substituted C1-6 alkyl, carboxyl, —C(O)—NRA1RA2, or —NRA1—C(O)—RA2, where each RA1 and RA2 is, independently, H, optionally substituted C1-6 alkyl, or optionally substituted C1-6 alkoxy-C1-6 alkyl; L is selected from the group consisting of optionally substituted C1-6 alkylene,
—NH—CZ1Z2—, and —CZ1Z2—NH—, where each Z1 and Z2 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted C1-6 alkenyloxy, optionally substituted C2-6 alkynyloxy, or optionally substituted halo-C1-6 alkoxy, or any described herein (e.g., H or optionally substituted C1-6 alkyl); or where the combination of Z1 and Z2 can together form oxo or optionally substituted C1-7 spirocyclyl; and each Z3a, Z3b, and Z4 is, independently, H or optionally substituted C1-6 alkyl.
In some embodiments, L is selected from the group consisting of optionally substituted C1-6 alkylene, —NH—C(O)—, —C(O)—NH—, —NH—CZ1Z2—, and —CZ1Z2—NH—, where each Z1 and Z2 is, independently, H or any described herein (e.g., H or optionally substituted C1-6 alkyl); or where the combination of Z1 and Z2 can together form oxo or optionally substituted C1-7 spirocyclyl.
In other embodiments, L is optionally substituted C1-10 heteroalkylene (e.g., —(CZ1Z2)L1—NZN1—(CZ1Z2)L2—, —(CZ1Z2)L1—O—(CZ1Z2)L2—, —(CZ1Z2)L1—S—(CZ1Z2)L2—, —(CZ1Z2)L1—NZN1—C(O)—(CZ1Z2)L2—, or —(CZ1Z2)L1—C(O)—NZN1—(CZ1Z2)L2—, where L1 is an integer from 0 to 10, L2 is an integer from 0 to 10, and the sum of L1 and L2 is an integer between 1 to 10 and where Z1, Z2, and ZN1 are as described herein). In particular embodiments, L is —(CZ1Z2)0-5—NZN1—(CZ1Z2)1-5—, —(CZ1Z2)1-5—NZN1—(CZ1Z2)0-5—, —(CZ1Z2)1-5—O—(CZ1Z2)1-5—, —(CZ1Z2)1-5—O—(CZ1Z2)0-5—, —(CZ1Z2)0-5—NZN1—C(O)—(CZ1Z2)1-5—, —(CZ1Z2)1-5—NZN1—C(O)—(CZ1Z2)0-5—, —(CZ1Z2)0-5—C(O)—NZN1—(CZ1Z2)1-5—, or —(CZ1Z2)1-5—C(O)—NZN1—(CZ1Z2)0-5—. In other embodiments, L is —(CH2)0-5—NZN1—(CH2)1-5—, —(CH2)1-5—NZN1—(CH2)0-5—, —(CH2)0-5—O—(CH2)1-5—, or —(CH2)1-5—O—(CH2)0-5—. In further embodiments, each ZN1 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, or optionally substituted C2-6 alkynyl (e.g., unsubstituted C1-6 alkyl).
In some embodiments, X is an optionally substituted C1-12 heteroaryl (e.g., any described herein, such as a 5-membered or a 6-membered optionally substituted C1-12 heteroaryl or a 5-membered or a 6-membered unsubstituted C1-12 heteroaryl).
In particular embodiments, the combination of RA1 and RA2 can together form optionally substituted C1-12 heterocyclyl (e.g., any described herein, such as optionally substituted morpholinyl, optionally substituted piperidinyl, optionally substituted piperazinyl, optionally substituted pyrrolidinyl, optionally substituted imidazolidinyl, optionally substituted pyrazolidinyl, optionally substituted oxazolidinyl, optionally substituted isoxazolidinyl, optionally substituted thiazolidinyl, optionally substituted isothiazolidinyl, optionally substituted thiomorpholinyl, optionally substituted azepanyl, or optionally substituted homopiperazinyl).
In some embodiments, the compound has a structure selected from:







or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof. In some embodiments, Z3a is H or optionally substituted C1-6 alkyl, or the combination of Z3a and the hydrogen on the same carbon as Z3a can together form oxo or optionally substituted C1-7 spirocyclyl.

In some embodiments, the compound has a structure selected from:







or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof.

In some embodiments, Y has the formula:




where the combination of Ya and Yb or the combination of Yb and Yc can together form optionally substituted C1-12 heterocyclyl.

In other embodiments, Y is optionally substituted C1-12 heteroaryl (e.g., selected from the group of optionally substituted quinoxalinyl, optionally substituted dihydroquinoxalinyl, optionally substituted quinazolinyl, optionally substituted cinnolinyl, optionally substituted phthalazinyl, optionally substituted quinolyl, optionally substituted isoquinolyl, optionally substituted dihydroquinolyl, optionally substituted tetrahydroquinolyl, optionally substituted dihydroisoquinolyl, optionally substituted tetrahydroisoquinolyl, optionally substituted benzoxazolyl, optionally substituted benzimidazolyl, optionally substituted benzothiazolyl, optionally substituted benzothiadiazolyl, optionally substituted indolyl, optionally substituted dihydroindolyl, optionally substituted indazolyl, optionally substituted benzofuranyl, optionally substituted isobenzofuranyl, optionally substituted benzothienyl, optionally substituted optionally substituted dihydroquinoxalinyl, optionally substituted dihydroquinolyl, optionally substituted tetrahydroquinolyl, optionally substituted dihydroisoquinolyl, optionally substituted tetrahydroisoquinolyl, or optionally substituted dihydroindolyl, where any of the heterocyclyls optionally include oxo). Exemplary optional substituents include oxo, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, or any described herein. In some embodiments, Y is unsubstituted C1-12 heteroaryl.
In some embodiments, L is C1-6 alkyl, —NH—C(O)—, —C(O)—NH—, —NH—CZ1Z2—, or —CZ1Z2—NH—, where each Z1 and Z2 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted C1-6 alkenyloxy, optionally substituted C2-6 alkynyloxy, or optionally substituted halo-C1-6 alkoxy, or any described herein (e.g., H or optionally substituted C1-6 alkyl, halo-C1-6 alkyl, C1-6 alkoxy, or halo-C1-6 alkoxy), or where the combination of Z1 and Z2 can together form oxo or optionally substituted C1-7 spirocyclyl.
In some embodiments, X is a 5-membered, optionally substituted C1-12 heteroaryl (e.g., optionally substituted furyl, optionally substituted pyrazolyl, optionally substituted thiazolyl, optionally substituted pyrrolyl, optionally substituted oxadiazolyl, optionally substituted isoxazolyl, optionally substituted oxazolyl, optionally substituted imidazolyl, optionally substituted thienyl, optionally substituted isothiazolyl, and optionally substituted thiadiazolyl). In some embodiments, X is a 5-membered, unsubstituted C1-12 heteroaryl (e.g., any described herein, such as furyl, pyrazolyl, thiazolyl, pyrrolyl, oxadiazolyl, isoxazolyl, oxazolyl, imidazolyl, thienyl, isothiazolyl, and thiadiazolyl).
In some embodiments, X is a 6-membered, optionally substituted C1-12 heteroaryl (e.g., optionally substituted pyridyl, optionally substituted pyrazinyl, optionally substituted pyrimidinyl, optionally substituted pyridazinyl, optionally substituted triazinyl, or optionally substituted tetrazinyl). In some embodiments, X is a 6-membered, unsubstituted C1-12 heteroaryl (e.g., any described herein, such as pyridyl, pyrazinyl, pyrimidinyl, pyridazinyl, triazinyl, or tetrazinyl).
In other embodiments, X has the formula:




where each of Xa, Xb, and Xc is, independently, selected from O, S, NRX1, N, or CRX2; RX1 is H or optionally substituted C1-6 alkyl; and RX2 is H, halo, or optionally substituted C1-6 alkyl.

In some embodiments, A is H, optionally substituted C1-12 heterocyclyl (e.g., optionally substituted C1-12 heteroaryl, such as optionally substituted tetrazolyl, optionally substituted oxadiazolyl, optionally substituted triazolyl, optionally substituted imidazolyl, optionally substituted pyrazolyl, optionally substituted oxazolyl, optionally substituted isoxazolyl, optionally substituted thiazolyl, optionally substituted isothiazolyl, optionally substituted thiadiazolyl, optionally substituted dithiazolyl, optionally substituted furyl, optionally substituted pyrrolyl, optionally substituted thienyl, or any described herein), —C(O)—NRA1RA2, or —NRA1—C(O)—RA2, where each RA1 and RA2 is, independently, H, optionally substituted C1-6 alkyl, or optionally substituted C1-6 alkoxy-C1-6 alkyl. In other embodiments, A is H or —C(O)—NRA1RA2, where each RA1 and RA2 is, independently, H, optionally substituted C1-6 alkyl, or optionally substituted C1-6 alkoxy-C1-6 alkyl.
In some embodiments, each of Z1, Z2, Z3a, and Z3b is, independently, H or methyl, or where the combination of Z1 and Z2 together form spirocyclopropyl. In other embodiments, each Z3a and Z3b is H, and/or both Z1 and Z2 are H.
In some embodiments, each R1, R2, R3, and R4 is, independently, CR5 (e.g., where each R5 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted halo-C1-6 alkoxy, or halo). In some embodiments, R1 is CH, R4 is CH, or both R1 and R4 are CH. In some embodiments, each R2 and R3 is, independently, CR5 and where each R5 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted halo-C1-6 alkoxy, optionally substituted C1-7 acyl, optionally substituted C1-7 acylamino, optionally substituted C1-7 acyloxy, optionally substituted amino, halo, cyano, nitro, or hydroxy. In some embodiments, each R5 is, independently, H, C1-6 alkyl, halo-C1-6 alkyl, halo, cyano, nitro, or hydroxy.
In some embodiments, the compound has the formula:




or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof,

where
each R2′, R3′, and R4′ is, independently, H, optionally substituted C1-6 alkyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted halo-C1-6 alkoxy, optionally substituted C1-7 acyl, optionally substituted C1-7 acylamino, optionally substituted C1-7 acyloxy, optionally substituted C6-10 aryl, optionally substituted amino, halo, cyano, nitro, hydroxy, or carboxyl;
each of Xa, Xb, and Xc is, independently, selected from O, S, NRX1, N, or CRX2, where RX1 is H or optionally substituted C1-6 alkyl, and RX2 is H, halo, or optionally substituted C1-6 alkyl; and
the combination of Ya and Yb or the combination of Yb and Yc together form optionally substituted C1-12 heterocyclyl (e.g., any described herein, such as optionally substituted quinoxalinyl, optionally substituted dihydroquinoxalinyl, optionally substituted quinazolinyl, optionally substituted quinolyl, optionally substituted isoquinolyl, optionally substituted dihydroquinolyl, optionally substituted benzoxazolyl, optionally substituted benzimidazolyl, optionally substituted benzothiazolyl, optionally substituted benzothiadiazolyl, optionally substituted indolyl, optionally substituted dihydroindolyl, optionally substituted indazolyl, optionally substituted benzofuranyl, optionally substituted isobenzofuranyl, and optionally substituted benzothienyl).
In some embodiments, the compound has the formula:




or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof,

where
each R2′, R3′, and R4′ is, independently, H, optionally substituted C1-6 alkyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-6 alkoxy, optionally substituted halo-C1-6 alkoxy, optionally substituted C1-7 acyl, optionally substituted C1-7 acylamino, optionally substituted C1-7 acyloxy, optionally substituted C6-10 aryl, optionally substituted amino, halo, cyano, nitro, hydroxy, or carboxyl;
each of Xa, Xb, and Xc is, independently, selected from O, S, NRX1, N, or CRX2, where RX1 is H or optionally substituted C1-6 alkyl, and RX2 is H, halo, or optionally substituted C1-6 alkyl; and
the combination of Ya and Yb or the combination of Yb and Yc together form optionally substituted C1-12 heterocyclyl (e.g., any described herein).
In some embodiments, the compound has the formula:







or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof, where each R2′, R3′, R4′, Xa, Xb, Xc, Ya, Yb, Z3a, Z3b, Z5a, and Z5b is as described herein. In some embodiments, each Z3a, Z3b, Z5a, and Z5b is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, or any described herein (e.g., each Z3a, Z3b, Z5a, and Z5b is, independently, H or optionally substituted C1-6 alkyl).

In any of formulas described herein (e.g., formulas (I), (Ia), (V), (V-2), (VI), (VI-2), (VII), (VII-2), (VIII), (VIII-2), (IX), (IX-2), (X), or (X-2)), the configuration of A is as in formula (Ib).
In particular embodiments, each R2′, R3′, and R4′ is, independently, H or halo.
In some embodiments, the compound has a formula provided in Table 1, or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof.
In some embodiments, the compound of the invention has an IC50 value less than about 1.0 μM (e.g., less than about 0.9 μM, less than about 0.8 μM, less than about 0.5 μM, less than about 0.3 μM, less than about 0.2 μM, less than about 0.1 μM, less than about 0.09 μM, less than about 0.08 μM, less than about 0.05 μM, less than about 0.04 μM, less than about 0.03 μM, less than about 0.025 μM, less than about 0.015 μM, less than about 0.01 μM, less than about 0.005 μM, less than about 0.002 μM, less than about 0.0015 μM, or less than about 0.001 μM). In some embodiments, the compound has an IC50 value from about 0.0001 μM to about 0.9 μM (e.g., from about 0.0001 μM to about 0.8 μM, from about 0.0001 μM to about 0.5 μM, from about 0.0001 μM to about 0.3 μM, from about 0.0001 μM to about 0.2 μM, from about 0.0001 μM to about 0.1 μM, from about 0.0001 μM to about 0.09 μM, from about 0.0001 μM to about 0.08 μM, from about 0.0001 M to about 0.05 μM, from about 0.0001 μM to about 0.04 μM, from about 0.0001 μM to about 0.03 μM, from about 0.0001 μM to about 0.025 μM, from about 0.0001 μM to about 0.015 μM, from about 0.0001 μM to about 0.01 μM, from about 0.0001 μM to about 0.005 μM, 0.0002 μM to about 0.9 μM, from about 0.0002 μM to about 0.8 μM, from about 0.0002 μM to about 0.5 μM, from about 0.0002 μM to about 0.3 μM, from about 0.0002 μM to about 0.2 μM, from about 0.0002 M to about 0.1 μM, from about 0.0002 μM to about 0.09 μM, from about 0.0002 μM to about 0.08 M, from about 0.0002 μM to about 0.05 μM, from about 0.0002 μM to about 0.04 μM, from about 0.0002 μM to about 0.03 μM, from about 0.0002 μM to about 0.025 μM, from about 0.0002 μM to about 0.015 μM, from about 0.0002 μM to about 0.01 μM, from about 0.0002 μM to about 0.005 M, about 0.0005 μM to about 0.9 μM, from about 0.0005 μM to about 0.8 μM, from about 0.0005 M to about 0.5 μM, from about 0.0005 μM to about 0.3 μM, from about 0.0005 μM to about 0.2 M, from about 0.0005 μM to about 0.1 μM, from about 0.0005 μM to about 0.09 μM, from about 0.0005 μM to about 0.08 μM, from about 0.0005 μM to about 0.05 μM, from about 0.0005 μM to about 0.04 μM, from about 0.0005 μM to about 0.03 μM, from about 0.0005 μM to about 0.025 μM, from about 0.0005 μM to about 0.015 μM, from about 0.0005 μM to about 0.01 μM, from about 0.0005 μM to about 0.005 μM, from about 0.0005 μM to about 0.002 μM, from about 0.0005 μM to about 0.0015 μM, or from about 0.0005 μM to about 0.001 μM). In some embodiments, the compound has an IC50 value from about 0.02 μM to about 1.0 μM (e.g., from about 0.02 μM to about 0.9 μM, from about 0.02 μM to about 0.75 μM, from about 0.02 μM to about 0.5 μM, from about 0.02 μM to about 0.3 μM, from about 0.02 μM to about 0.25 μM, from about 0.02 μM to about 0.2 μM, from about 0.02 μM to about 0.15 μM, from about 0.02 μM to about 0.1 μM, from about 0.02 μM to about 0.09 μM, from about 0.02 μM to about 0.08 μM, from about 0.02 μM to about 0.05 μM, from about 0.02 μM to about 0.04 μM, from about 0.02 μM to about 0.03 μM, or from about 0.02 μM to about 0.025 μM).
The invention also features a pharmaceutical composition comprising a compound of formula (I), (I-2), (Ia), (Ia-2), (Ib), (Ib-2), (IIa), (IIa-2), (IIb), (II-b-2), (IIc), (IIc-2), (IId), (IId-2), (Ile), (Ile-2), (IIf), (IIf-2), (V), (V-2), (VI), (VI-2), (VII), (VII-2), (VIII), (VIII-2), (IX), (IX-2), (X), and (X-2), or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof, and a pharmaceutically acceptable excipient.
The invention further features a method of treating or prophylactically treating a condition in a subject (e.g., a human subject) in need thereof, where the method includes administering an effective amount of a compound of the invention, or a stereoisomer, pharmaceutically acceptable salt, or pharmaceutically acceptable prodrug thereof, or a pharmaceutical composition thereof to the subject. Examples of such conditions include a B-cell associated disease or a mast cell associated disease (e.g., a cancer, an inflammatory disorder, or an autoimmune disorder associated with B-cell or mast cell activation), cancer (e.g., any described herein), or an inflammatory or autoimmune disorder (e.g., any described herein).
Non-limiting exemplary cancers include leukemia, including acute myeloid leukemia (AML), acute lymphocytic leukemia (ALL), chronic myeloid leukemia (CML), chronic lymphocytic leukemia (CLL), hairy cell leukemia, chronic myelomonocytic leukemia (CMML), juvenile myelomonocytic leukemia (JMML), and B-cell prolymphocytic leukemia (B-PLL); lymphomas, including Hodgkin and non-Hodgkin lymphoma, such as B-cell lymphomas (e.g., diffuse large B-cell lymphoma (e.g., mediastinal (thymic) large B-cell lymphoma and intravascular large B-cell lymphoma), follicular lymphoma, small lymphocytic lymphoma (SLL), chronic lymphocytic leukemia/small lymphocytic lymphoma (CLL/SLL), mantle cell lymphoma (e.g., relapsed or refractory), marginal zone B-cell lymphomas, Burkitt lymphoma, lymphoplasmacytic lymphoma, hairy cell leukemia, primary central nervous system (CNS) lymphoma, primary effusion lymphoma, and lymphomatoid granulomatosis); myelomas, including multiple myeloma, plasmacytoma, localized myeloma, and extramedullary myeloma; and other cancers, such as pancreatic neoplasms, including pancreatic exocrine tumors (e.g., ductal adenocarcinoma, signet ring cell carcinomas, hepatoid carcinomas, colloid carcinomas, undifferentiated carcinomas, and undifferentiated carcinomas with osteoclast-like giant cells), pancreatic cystic neoplasms (e.g., mucinous cystadenoma, serous cystadenoma, and mucinous ductal ectasia), pancreatic neuroendocrine tumors (e.g., insulinoma, glucagonoma, gastrinoma, VIPoma, and somatostatinoma), papillary cystic neoplasms of the pancreas, lymphoma of the pancreas, and acinar cell tumors of the pancreas, or any described herein.
Non-limiting exemplary inflammatory or autoimmune disorders include autoimmune arthritis (e.g., rheumatoid arthritis, psoriatic arthritis, ankylosing spondylitis, Still's disease, juvenile arthritis, and mixed and undifferentiated connective tissue diseases), autoimmune hemolytic and thrombocytopenic states (e.g., autoimmune-mediated hemolytic anemia, e.g., warm autoimmune hemolytic anemia, cold autoimmune hemolytic anemia, cold agglutinin disease, and paroxysmal cold hemoglobinuria), autoimmune hepatitis, Behçet's disease, chronic idiopathic thrombocytopenic purpura (ITP), glomerulonephritis, Goodpasture's syndrome (and associated glomerulonephritis and pulmonary hemorrhage), idiopathic thrombocytopenic purpura (ITP) (e.g., acute ITP or chronic ITP), inflammatory bowel disease (including Crohn's disease and ulcerative colitis), multiple sclerosis, psoriasis (including psoriatic lesions in the skin), systemic lupus erythematosus (and associated glomerulonephritis), and vasculitis (including antineutrophil cytoplasmic antibodies-associated vasculitis, immune complex mediated vasculitis, and Wegener's granulomatosis), or any described herein.
Definitions
The term “about,” as used herein, means+/−10% of the recited value.
The term “acyl,” as used herein, represents a hydrogen or an alkyl group (e.g., a haloalkyl group), as defined herein, that is attached to the parent molecular group through a carbonyl group, as defined herein, and is exemplified by formyl (i.e., a carboxyaldehyde group), acetyl, propionyl, butanoyl and the like. Exemplary unsubstituted acyl groups include from 1 to 7 carbons. In some embodiments, the alkyl group is further substituted with 1, 2, 3, or 4 substituents as described herein.
The term “acylamino,” as used herein, represents an acyl group, as defined herein, attached to the parent molecular group though an amino group, as defined herein (i.e., —N(RN1)2—C(O)—R, where R is H or an optionally substituted C1-6 alkyl group). Exemplary unsubstituted acylamino groups include from 1 to 7 carbons. In some embodiments, the alkyl group is further substituted with 1, 2, 3, or 4 substituents as described herein, and/or the amino group is —NH2 or —NHRN1, wherein RN1 is, independently, OH, NO2, NH2, NRN22, SO2ORN2, SO2RN2, SORN2, alkyl, or aryl, and each RN2 can be H, alkyl, or aryl.
The term “acyloxy,” as used herein, represents an acyl group, as defined herein, attached to the parent molecular group though an oxygen atom (i.e., —O—C(O)—R, where R is H or an optionally substituted C1-6 alkyl group). Exemplary unsubstituted acyloxy groups include from 1 to 7 carbons. In some embodiments, the alkyl group is further substituted with 1, 2, 3, or 4 substituents as described herein, and/or the amino group is —NH2 or —NHRN1, wherein RN1 is, independently, OH, NO2, NH2, NRN22, SO2ORN2, SO2RN2, SORN2, alkyl, or aryl, and each RN2 can be H, alkyl, or aryl.
The term “alkaryl,” as used herein, represents an aryl group, as defined herein, attached to the parent molecular group through an alkylene group, as defined herein. Exemplary unsubstituted alkaryl groups are from 7 to 16 carbons (e.g., C1-6 alk-C6-10 aryl). In some embodiments, the alkylene and the aryl each can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein for the respective groups. Other groups preceded by the prefix “alk-” are defined in the same manner, where “alk” refers to a C1-6 alkylene, unless otherwise noted, and the attached chemical structure is as defined herein.
The term “alkcycloalkyl” represents a cycloalkyl group, as defined herein, attached to the parent molecular group through an alkylene group, as defined herein (e.g., an alkylene group of 1-4, 1-6, or 1-10 carbons). In some embodiments, the alkylene and the cycloalkyl each can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein for the respective group.
The term “alkenyl,” as used herein, represents monovalent straight or branched chain groups of, unless otherwise specified, from 2 to 6 carbons containing one or more carbon-carbon double bonds and is exemplified by ethenyl, 1-propenyl, 2-propenyl, 2-methyl-1-propenyl, 1-butenyl, 2-butenyl, and the like. Alkenyl groups may be optionally substituted with 1, 2, 3, or 4 substituent groups that are selected, independently, from aryl, cycloalkyl, or heterocyclyl (e.g., heteroaryl), as defined herein, or any of the exemplary alkyl substituent groups described herein.
The term “alkenyloxy” represents a chemical substituent of formula —OR, where R is a C2-6 alkenyl group, unless otherwise specified. In some embodiments, the alkenyl group can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “alkheteroaryl” refers to a heteroaryl group, as defined herein, attached to the parent molecular group through an alkylene group, as defined herein. In some embodiments, the alkylene and the heteroaryl each can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein for the respective group. Alkheteroaryl groups are a subset of alkheterocyclyl groups.
The term “alkheterocyclyl” represents a heterocyclyl group, as defined herein, attached to the parent molecular group through an alkylene group, as defined herein. Exemplary unsubstituted alkheterocyclyl groups are from 2 to 18 (e.g., 2 to 17, 2 to 16, 3 to 15, 2 to 14, 2 to 13, or 2 to 12) carbons. In some embodiments, the alkylene and the heterocyclyl each can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein for the respective group.
The term “alkoxy” represents a chemical substituent of formula —OR, where R is a C1-6 alkyl group, unless otherwise specified. In some embodiments, the alkyl group can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “alkoxyalkyl” represents an alkyl group that is substituted with an alkoxy group. Exemplary unsubstituted alkoxyalkyl groups include between 2 to 12 carbons (e.g., C1-6 alkoxy-C1-6 alkyl). In some embodiments, the alkyl and the alkoxy each can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein for the respective group.
The term “alkyl,” as used herein, is inclusive of both straight chain and branched chain saturated groups from 1 to 6 carbons, unless otherwise specified. Alkyl groups are exemplified by methyl, ethyl, n- and iso-propyl, n-, sec-, iso- and tert-butyl, neopentyl, and the like, and may be optionally substituted with one, two, three, or, in the case of alkyl groups of two carbons or more, four substituents independently selected from the group consisting of: (1) C1-6 alkoxy; (2) C1-6 alkylsulfinyl; (3) amino; (4) C6-10 aryl-C1-6 alkoxy; (5) azido; (6) halo; (7) (C2-9 heterocyclyl)oxy; (8) hydroxy; (9) nitro; (10) oxo (e.g., carboxyaldehyde or acyl); (11) C1-7 spirocyclyl; (12) thioalkoxy; (13) thiol; (14) —CO2RA′, where RA′ is selected from the group consisting of (a) C1-6 alkyl, (b) C6-10 aryl, (c) hydrogen, and (d) C1-6 alk-C6-10 aryl; (15) —C(O)NRB′RC′, where each of RB′ and RC′ is, independently, selected from the group consisting of (a) hydrogen, (b) C1-6 alkyl, (c) C6-10 aryl, and (d) C1-6 alk-C6-10 aryl; (16) —SO2RD′, where RD′ is selected from the group consisting of (a) C1-6 alkyl, (b) C6-10 aryl, and (c) C1-6 alk-C6-10 aryl; and (17) —SO2NRE′RF′, where each of RE′ and RF′ is, independently, selected from the group consisting of (a) hydrogen, (b) C1-6 alkyl, (c) C6-10 aryl and (d) C1-6 alk-C6-10 aryl. In some embodiments, each of these groups can be further substituted as described herein. For example, the alkylene group of a C1-alkaryl can be further substituted with an oxo group to afford the respective aryloyl substituent.
The term “alkylene” and the prefix “alk-,” as used herein, represent a saturated divalent hydrocarbon group derived from a straight or branched chain saturated hydrocarbon by the removal of two hydrogen atoms, and is exemplified by methylene, ethylene, isopropylene, and the like. The term “Cx-y alkylene” and the prefix “Cx-y alk-” represent alkylene groups having between x and y carbons. Exemplary values for x are 1, 2, 3, 4, 5, and 6, and exemplary values for y are 2, 3, 4, 5, 6, 7, 8, 9, or 10. In some embodiments, the alkylene can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein for an alkyl group.
The term “alkylsulfinyl,” as used herein, represents an alkyl group attached to the parent molecular group through an —S(O)— group. Exemplary unsubstituted alkylsulfinyl groups are from 1 to 6 carbons. In some embodiments, the alkyl group can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “alkylsulfinylalkyl,” as used herein, represents an alkyl group, as defined herein, substituted by an alkylsulfinyl group. Exemplary unsubstituted alkylsulfinylalkyl groups are from 2 to 12 carbons. In some embodiments, each alkyl group can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “alkynyl,” as used herein, represents monovalent straight or branched chain groups from two to six carbon atoms containing a carbon-carbon triple bond and is exemplified by ethynyl, 1-propynyl, and the like. Alkynyl groups may be optionally substituted with 1, 2, 3, or 4 substituent groups that are selected, independently, from aryl, cycloalkyl, or heterocyclyl (e.g., heteroaryl), as defined herein, or any of the exemplary alkyl substituent groups described herein.
The term “alkynyloxy” represents a chemical substituent of formula —OR, where R is a C2-6 alkynyl group, unless otherwise specified. In some embodiments, the alkynyl group can be further substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “amino,” as used herein, represents —N(RN1)2, wherein each RN1 is, independently, H, OH, NO2, N(RN2)2, SO2ORN2, SO2RN2, SORN2, an N-protecting group, alkyl, alkenyl, alkynyl, alkoxy, aryl, alkaryl, cycloalkyl, alkcycloalkyl, heterocyclyl (e.g., heteroaryl), alkheterocyclyl (e.g., alkheteroaryl), or two RN1 combine to form a heterocyclyl or an N-protecting group, and wherein each RN2 is, independently, H, alkyl, or aryl. The amino groups of the invention can be an unsubstituted amino (i.e., —NH2) or a substituted amino (i.e., —N(RN1)2). In a preferred embodiment, amino is —NH2 or —NHRN1, wherein RN1 is, independently, OH, NO2, NH2, NRN22, SO2ORN2, SO2RN2, SORN2, alkyl, or aryl, and each RN2 can be H, C1-6 alkyl, or C6-10 aryl.
The term “aminoalkyl,” as used herein, represents an alkyl group, as defined herein, substituted by an amino group, as defined herein. The alkyl and amino each can be further substituted with 1, 2, 3, or 4 substituent groups as described herein for the respective group.
The term “aryl,” as used herein, represents a mono-, bicyclic, or multicyclic carbocyclic ring system having one or two aromatic rings and is exemplified by phenyl, naphthyl, 1,2-dihydronaphthyl, 1,2,3,4-tetrahydronaphthyl, fluorenyl, indanyl, indenyl, and the like, and may be optionally substituted with 1, 2, 3, 4, or 5 substituents independently selected from the group consisting of: (1) C1-7 acyl (e.g., carboxyaldehyde); (2) C1-6 alkyl (e.g., C1-6 alkoxy-C1-6 alkyl, C1-6 alkylsulfinyl-C1-6 alkyl, amino-C1-6 alkyl, azido-C1-6 alkyl, (carboxyaldehyde)-C1-6 alkyl, halo-C1-6 alkyl (e.g., perfluoroalkyl), hydroxy-C1-6 alkyl, nitro-C1-6 alkyl, or C1-6 thioalkoxy-C1-6 alkyl); (3) C1-6 alkoxy (e.g., perfluoroalkoxy); (4) C1-6 alkylsulfinyl; (5) C6-10 aryl; (6) amino; (7) C1-6 alk-C6-10 aryl; (8) azido; (9) C3-8 cycloalkyl; (10) C1-6 alk-C3-8 cycloalkyl; (11) halo; (12) C1-12 heterocyclyl (e.g., C1-12 heteroaryl); (13) (C1-12 heterocyclyl)oxy; (14) hydroxy; (15) nitro; (16) C1-6 thioalkoxy; (17) —(CH2)qCO2RA′, where q is an integer from zero to four, and RA′ is selected from the group consisting of (a) C1-6 alkyl, (b) C6-10 aryl, (c) hydrogen, and (d) C1-6 alk-C6-10 aryl; (18) —(CH2)qCONRB′RC′, where q is an integer from zero to four and where RB′ and RC′ are independently selected from the group consisting of (a) hydrogen, (b) C1-6 alkyl, (c) C6-10 aryl, and (d) C1-6 alk-C6-10 aryl; (19) —(CH2)qSO2Rd′, where q is an integer from zero to four and where RD′ is selected from the group consisting of (a) alkyl, (b) C6-10 aryl, and (c) alk-C6-10 aryl; (20) —(CH2)qSO2NRE′RF′, where q is an integer from zero to four and where each of RE′ and RF′ is, independently, selected from the group consisting of (a) hydrogen, (b) C1-6 alkyl, (c) C6-10 aryl, and (d) C1-6 alk-C6-10 aryl; (21) thiol; (22) C6-10 aryloxy; (23) C3-8 cycloalkoxy; (24) C6-10 aryl-C1-6 alkoxy; and (25) C1-6 alk-C1-12 heterocyclyl (e.g., C1-6 alk-C1-12 heteroaryl). In some embodiments, each of these groups can be further substituted as described herein. For example, the alkylene group of a C1-alkaryl or a C1-alkheterocyclyl can be further substituted with an oxo group to afford the respective aryloyl and (heterocyclyl)oyl substituent group.
The term “arylalkoxy,” as used herein, represents an alkaryl group, as defined herein, attached to the parent molecular group through an oxygen atom. Exemplary unsubstituted arylalkoxy groups are from 7 to 16 carbons (e.g., C6-10 aryl-C1-6 alkoxy). In some embodiments, the alkaryl group can be substituted with 1, 2, 3, or 4 substituents as defined herein.
The term “aryloxy” represents a chemical substituent of formula —OR′, where R′ is an aryl group of 6 to 18 carbons, unless otherwise specified. In some embodiments, the aryl group can be substituted with 1, 2, 3, or 4 substituents as defined herein.
The term “aryloyl,” as used herein, represents an aryl group, as defined herein, that is attached to the parent molecular group through a carbonyl group. Exemplary unsubstituted aryloyl groups are of 7 to 11 carbons. In some embodiments, the aryl group can be substituted with 1, 2, 3, or 4 substituents as defined herein.
The term “azido” represents an —N3 group, which can also be represented as —N═N═N.
The term “bicyclic,” as used herein, refer to a structure having two rings, which may be aromatic or non-aromatic. Bicyclic structures include spirocyclyl groups, as defined herein, and two rings that share one or more bridges, where such bridges can include one atom or a chain including two, three, or more atoms. Exemplary bicyclic groups include a bicyclic carbocyclyl group, where the first and second rings are carbocyclyl groups, as defined herein; a bicyclic aryl groups, where the first and second rings are aryl groups, as defined herein; bicyclic heterocyclyl groups, where the first ring is a heterocyclyl group and the second ring is a carbocyclyl (e.g., aryl) or heterocyclyl (e.g., heteroaryl) group; and bicyclic heteroaryl groups, where the first ring is a heteroaryl group and the second ring is a carbocyclyl (e.g., aryl) or heterocyclyl (e.g., heteroaryl) group. In some embodiments, the bicyclic group can be substituted with 1, 2, 3, or 4 substituents as defined herein for cycloalkyl, heterocyclyl, and aryl groups.
The terms “carbocyclic” and “carbocyclyl,” as used herein, refer to an optionally substituted C3-12 monocyclic, bicyclic, or tricyclic structure in which the rings, which may be aromatic or non-aromatic, are formed by carbon atoms. Carbocyclic structures include cycloalkyl, cycloalkenyl, and aryl groups.
As used herein, the term “carbamyl” refers to a carbamate group having the structure —NRN1C(═O)OR or —OC(═O)N(RN1)2, where the meaning of each RN1 is found in the definition of “amino” provided herein, and R is alkyl, cycloalkyl, alkcycloalkyl, aryl, alkaryl, heterocyclyl (e.g., heteroaryl), or alkheterocyclyl (e.g., alkheteroaryl), as defined herein.
The term “carbonyl,” as used herein, represents a C(O) group, which can also be represented as C═O.
The term “carboxyaldehyde” represents an acyl group having the structure —CHO.
The term “carboxyl,” as used herein, means —CO2H.
The term “cyano,” as used herein, represents an —CN group.
The term “cycloalkyl,” as used herein represents a monovalent saturated or unsaturated non-aromatic cyclic hydrocarbon group from three to eight carbons, unless otherwise specified, and is exemplified by cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl, cycloheptyl, bicyclo[2.2.1.]heptyl, and the like. When the cycloalkyl group includes one carbon-carbon double bond, the cycloalkyl group can be referred to as a “cycloalkenyl” group. Exemplary cycloalkenyl groups include cyclopentenyl, cyclohexenyl, and the like. The cycloalkyl groups of this invention can be optionally substituted with: (1) C1-7 acyl (e.g., carboxyaldehyde); (2) C1-6 alkyl (e.g., C1-6 alkoxy-C1-6 alkyl, C1-6 alkylsulfinyl-C1-6 alkyl, amino-C1-6 alkyl, azido-C1-6 alkyl, (carboxyaldehyde)-C1-6 alkyl, halo-C1-6 alkyl (e.g., perfluoroalkyl), hydroxy-C1-6 alkyl, nitro-C1-6 alkyl, or C1-6 thioalkoxy-C1-6 alkyl); (3) C1-6 alkoxy (e.g., perfluoroalkoxy); (4) C1-6 alkylsulfinyl; (5) C6-10 aryl; (6) amino; (7) C1-6 alk-C6-10 aryl; (8) azido; (9) C3-8 cycloalkyl; (10) C1-6 alk-C3-8 cycloalkyl; (11) halo; (12) C1-12 heterocyclyl (e.g., C1-12 heteroaryl); (13) (C1-12 heterocyclyl)oxy; (14) hydroxy; (15) nitro; (16) C1-6 thioalkoxy; (17) —(CH2)qCO2RA′, where q is an integer from zero to four, and RA′ is selected from the group consisting of (a) C1-6 alkyl, (b) C6-10 aryl, (c) hydrogen, and (d) C1-6 alk-C6-10 aryl; (18) —(CH2)qCONRB′RC′, where q is an integer from zero to four and where RB′ and RC′ are independently selected from the group consisting of (a) hydrogen, (b) C6-10 alkyl, (c) C6-10 aryl, and (d) C1-6 alk-C6-10aryl; (19) —(CH2)qSO2RD′, where q is an integer from zero to four and where RD′ is selected from the group consisting of (a) C6-10 alkyl, (b) C6-10 aryl, and (c) C1-6 alk-C6-10 aryl; (20) —(CH2)qSO2NRE′RF′, where q is an integer from zero to four and where each of RE′ and RF′ is, independently, selected from the group consisting of (a) hydrogen, (b) C6-10 alkyl, (c) C6-10 aryl, and (d) C1-6 alk-C6-10 aryl; (21) thiol; (22) C6-10 aryloxy; (23) C3-8 cycloalkoxy; (24) C6-10 aryl-C1-6 alkoxy; (25) C1-6 alk-C1-12 heterocyclyl (e.g., C1-6 alk-C1-12 heteroaryl); and (26) oxo. In some embodiments, each of these groups can be further substituted as described herein. For example, the alkylene group of a C1-alkaryl or a C1-alkheterocyclyl can be further substituted with an oxo group to afford the respective aryloyl and (heterocyclyl)oyl substituent group.
The term “cycloalkoxy,” as used herein, represents a cycloalkyl group, as defined herein, attached to the parent molecular group through an oxygen atom. Exemplary unsubstituted cycloalkoxy groups are from 3 to 8 carbons. In some embodiment, the cycloalkyl group can be further substituted with 1, 2, 3, or 4 substituent groups as described herein.
The term “effective amount” of an agent, as used herein, is that amount sufficient to effect beneficial or desired results, for example, clinical results, and, as such, an “effective amount” depends upon the context in which it is being applied. For example, in the context of administering an agent that treats cancer, an effective amount of an agent is, for example, an amount sufficient to achieve treatment, as defined herein, of cancer, as compared to the response obtained without administration of the agent.
The term “enantiomer,” as used herein, means each individual optically active form of a compound of the invention, having an optical purity or enantiomeric excess (as determined by methods standard in the art) of at least 80% (i.e., at least 90% of one enantiomer and at most 10% of the other enantiomer), preferably at least 90% and more preferably at least 98%.
The term “halo,” as used herein, represents a halogen selected from bromine, chlorine, iodine, or fluorine.
The term “haloalkoxy,” as used herein, represents an alkoxy group, as defined herein, substituted by a halogen group (i.e., F, Cl, Br, or I). A haloalkoxy may be substituted with one, two, three, or, in the case of alkyl groups of two carbons or more, four halogens. Haloalkoxy groups include perfluoroalkoxys (e.g., —OCF3), —OCHF2, —OCH2F, —OCCl3, —OCH2CH2Br, —OCH2CH(CH2CH2Br)CH3, and —OCHICH3. In some embodiments, the haloalkoxy group can be further substituted with 1, 2, 3, or 4 substituent groups as described herein for alkyl groups.
The term “haloalkyl,” as used herein, represents an alkyl group, as defined herein, substituted by a halogen group (i.e., F, Cl, Br, or I). A haloalkyl may be substituted with one, two, three, or, in the case of alkyl groups of two carbons or more, four halogens. Haloalkyl groups include perfluoroalkyls (e.g., —CF3), —CHF2, —CH2F, —CCl3, —CH2CH2Br, —CH2CH(CH2CH2Br)CH3, and —CHICH3. In some embodiments, the haloalkyl group can be further substituted with 1, 2, 3, or 4 substituent groups as described herein for alkyl groups.
The term “heteroalkylene,” as used herein, refers to an alkylene group, as defined herein, in which one, two, three, or four of the constituent carbon atoms have each been replaced independently by nitrogen, oxygen, and/or sulfur. In some embodiments, the heteroalkylene group can be further substituted with 1, 2, 3, or 4 substituent groups as described herein for alkylene groups (e.g., an oxo group).
The term “heteroaryl,” as used herein, represents that subset of heterocyclyls, as defined herein, which are aromatic: i.e., they contain 4n+2 pi electrons within the mono- or multicyclic ring system. Exemplary unsubstituted heteroaryl groups are of 1 to 12 (e.g., 1 to 11, 1 to 10, 1 to 9, 2 to 12, 2 to 11, 2 to 10, or 2 to 9) carbons. In some embodiment, the heteroaryl is substituted with 1, 2, 3, or 4 substituents groups as defined for a heterocyclyl group.
The term “heterocyclyl,” as used herein represents a 5-, 6- or 7-membered ring, unless otherwise specified, containing one, two, three, or four heteroatoms independently selected from the group consisting of nitrogen, oxygen, and sulfur. The 5-membered ring has zero to two double bonds, and the 6- and 7-membered rings have zero to three double bonds. Exemplary unsubstituted heterocyclyl groups are of 1 to 12 (e.g., 1 to 11, 1 to 10, 1 to 9, 2 to 12, 2 to 11, 2 to 10, or 2 to 9) carbons. The term “heterocyclyl” also represents a heterocyclic compound having a bridged multicyclic structure in which one or more carbons and/or heteroatoms bridges two non-adjacent members of a monocyclic ring, e.g., a quinuclidinyl group. The term “heterocyclyl” includes bicyclic, tricyclic, and tetracyclic groups in which any of the above heterocyclic rings is fused to one, two, or three carbocyclic rings, e.g., an aryl ring, a cyclohexane ring, a cyclohexene ring, a cyclopentane ring, a cyclopentene ring, or another monocyclic heterocyclic ring, such as indolyl, quinolyl, isoquinolyl, tetrahydroquinolyl, benzofuryl, benzothienyl and the like. Examples of fused heterocyclyls include tropanes and 1,2,3,5,8,8a-hexahydroindolizine. Heterocyclics include pyrrolyl, pyrrolinyl, pyrrolidinyl, pyrazolyl, pyrazolinyl, pyrazolidinyl, imidazolyl, imidazolinyl, imidazolidinyl, pyridyl, piperidinyl, homopiperidinyl, pyrazinyl, piperazinyl, pyrimidinyl, pyridazinyl, oxazolyl, oxazolidinyl, isoxazolyl, isoxazolidinyl, morpholinyl, thiomorpholinyl, thiazolyl, thiazolidinyl, isothiazolyl, isothiazolidinyl, oxazinyl, thiazinyl, dioxinyl, indolyl, indazolyl, quinolyl, isoquinolyl, quinoxalinyl, dihydroquinoxalinyl, quinazolinyl, cinnolinyl, phthalazinyl, benzimidazolyl, benzothiazolyl, benzoxazolyl, benzothiadiazolyl, furyl, thienyl, thiazolidinyl, isothiazolyl, triazolyl, tetrazolyl, oxadiazolyl (e.g., 1,2,3-oxadiazolyl), purinyl, thiadiazolyl (e.g., 1,2,3-thiadiazolyl), tetrahydrofuranyl, dihydrofuranyl, tetrahydrothienyl, dihydrothienyl, dihydroindolyl, dihydroquinolyl, tetrahydroquinolyl, tetrahydroisoquinolyl, dihydroisoquinolyl, pyranyl, thiopyranyl, dihydropyranyl, triazinyl, tetrazinyl, dithiazolyl, benzofuranyl, isobenzofuranyl, benzothienyl, and the like, including dihydro and tetrahydro forms thereof, where one or more double bonds are reduced and replaced with hydrogens. Still other exemplary heterocyclyls include: 2,3,4,5-tetrahydro-2-oxo-oxazolyl; 2,3-dihydro-2-oxo-1H-imidazolyl; 2,3,4,5-tetrahydro-5-oxo-1H-pyrazolyl (e.g., 2,3,4,5-tetrahydro-2-phenyl-5-oxo-1H-pyrazolyl); 2,3,4,5-tetrahydro-2,4-dioxo-1H-imidazolyl (e.g., 2,3,4,5-tetrahydro-2,4-dioxo-5-methyl-5-phenyl-1H-imidazolyl); 2,3-dihydro-2-thioxo-1,3,4-oxadiazolyl (e.g., 2,3-dihydro-2-thioxo-5-phenyl-1,3,4-oxadiazolyl); 4,5-dihydro-5-oxo-1H-triazolyl (e.g., 4,5-dihydro-3-methyl-4-amino 5-oxo-1H-triazolyl); 1,2,3,4-tetrahydro-2,4-dioxopyridinyl (e.g., 1,2,3,4-tetrahydro-2,4-dioxo-3,3-diethylpyridinyl); 2,6-dioxo-piperidinyl (e.g., 2,6-dioxo-3-ethyl-3-phenylpiperidinyl); 1,6-dihydro-6-oxopyridiminyl; 1,6-dihydro-4-oxopyrimidinyl (e.g., 2-(methylthio)-1,6-dihydro-4-oxo-5-methylpyrimidin-1-yl); 1,2,3,4-tetrahydro-2,4-dioxopyrimidinyl (e.g., 1,2,3,4-tetrahydro-2,4-dioxo-3-ethylpyrimidinyl); 1,6-dihydro-6-oxo-pyridazinyl (e.g., 1,6-dihydro-6-oxo-3-ethylpyridazinyl); 1,6-dihydro-6-oxo-1,2,4-triazinyl (e.g., 1,6-dihydro-5-isopropyl-6-oxo-1,2,4-triazinyl); 2,3-dihydro-2-oxo-1H-indolyl (e.g., 3,3-dimethyl-2,3-dihydro-2-oxo-1H-indolyl and 2,3-dihydro-2-oxo-3,3′-spiropropane-1H-indol-1-yl); 1,3-dihydro-1-oxo-2H-iso-indolyl; 1,3-dihydro-1,3-dioxo-2H-iso-indolyl; 1H-benzopyrazolyl (e.g., 1-(ethoxycarbonyl)-1H-benzopyrazolyl); 2,3-dihydro-2-oxo-1H-benzimidazolyl (e.g., 3-ethyl-2,3-dihydro-2-oxo-1H-benzimidazolyl); 2,3-dihydro-2-oxo-benzoxazolyl (e.g., 5-chloro-2,3-dihydro-2-oxo-benzoxazolyl); 2,3-dihydro-2-oxo-benzoxazolyl; 2-oxo-2H-benzopyranyl; 1,4-benzodioxanyl; 1,3-benzodioxanyl; 2,3-dihydro-3-oxo,4H-1,3-benzothiazinyl; 3,4-dihydro-4-oxo-3H-quinazolinyl (e.g., 2-methyl-3,4-dihydro-4-oxo-3H-quinazolinyl); 1,2,3,4-tetrahydro-2,4-dioxo-3H-quinazolyl (e.g., 1-ethyl-1,2,3,4-tetrahydro-2,4-dioxo-3H-quinazolyl); 1,2,3,6-tetrahydro-2,6-dioxo-7H-purinyl (e.g., 1,2,3,6-tetrahydro-1,3-dimethyl-2,6-dioxo-7H-purinyl); 1,2,3,6-tetrahydro-2,6-dioxo-1H-purinyl (e.g., 1,2,3,6-tetrahydro-3,7-dimethyl-2,6-dioxo-1H-purinyl); 2-oxobenz[c,d]indolyl; 1,1-dioxo-2H-naphth[1,8-c,d]isothiazolyl; and 1,8-naphthylenedicarboxamido. Additional heterocyclics include 3,3a,4,5,6,6a-hexahydro-pyrrolo[3,4-b]pyrrol-(2H)-yl, and 2,5-diazabicyclo[2.2.1]heptan-2-yl, homopiperazinyl (or diazepanyl), tetrahydropyranyl, dithiazolyl, benzofuranyl, benzothienyl, oxepanyl, thiepanyl, azocanyl, oxecanyl, and thiocanyl. Heterocyclic groups also include groups of the formula




where E′ is selected from the group consisting of —N— and —CH—; F′ is selected from the group consisting of —N═CH—, —NH—CH2—, —NH—C(O)—, —NH—, —CH═N—, —CH2—NH—, —C(O)—NH—, —CH═CH—, —CH2—, —CH2CH2—, —CH2O—, —OCH2—, —O—, and —S—; and G′ is selected from the group consisting of —CH— and —N—. Any of the heterocyclyl groups mentioned herein may be optionally substituted with one, two, three, four or five substituents independently selected from the group consisting of: (1) C1-7 acyl (e.g., carboxyaldehyde); (2) C1-6 alkyl (e.g., C1-6 alkoxy-C1-6 alkyl, C1-6 alkylsulfinyl-C1-6 alkyl, amino-C1-6 alkyl, azido-C1-6 alkyl, (carboxyaldehyde)-C1-6 alkyl, halo-C1-6 alkyl (e.g., perfluoroalkyl), hydroxy-C1-6 alkyl, nitro-C1-6 alkyl, or C1-6 thioalkoxy-C1-6 alkyl); (3) C1-6 alkoxy (e.g., perfluoroalkoxy); (4) C1-6 alkylsulfinyl; (5) C6-10 aryl; (6) amino; (7) C1-6 alk-C6-10 aryl; (8) azido; (9) C3-8 cycloalkyl; (10) C1-6 alk-C3-8 cycloalkyl; (11) halo; (12) C1-12 heterocyclyl (e.g., C2-12 heteroaryl); (13) (C1-12 heterocyclyl)oxy; (14) hydroxy; (15) nitro; (16) C1-6 thioalkoxy; (17) —(CH2)qCO2RA′, where q is an integer from zero to four, and RA′ is selected from the group consisting of (a) C1-6 alkyl, (b) C6-10 aryl, (c) hydrogen, and (d) C1-6 alk-C6-10 aryl; (18) —(CH2)qCONRB′RC′, where q is an integer from zero to four and where RB′ and RC′ are independently selected from the group consisting of (a) hydrogen, (b) C1-6 alkyl, (c) C6-10 aryl, and (d) C1-6 alk-C6-10 aryl; (19) —(CH2)qSO2RD′, where q is an integer from zero to four and where RD′ is selected from the group consisting of (a) C1-6 alkyl, (b) C6-10 aryl, and (c) C1-6 alk-C6-10 aryl; (20) —(CH2)qSO2NRE′RF′, where q is an integer from zero to four and where each of RE′ and RF′ is, independently, selected from the group consisting of (a) hydrogen, (b) C1-6 alkyl, (c) C6-10 aryl, and (d) C1-6 alk-C6-10 aryl; (21) thiol; (22) C6-10 aryloxy; (23) C3-8 cycloalkoxy; (24) arylalkoxy; (25) C1-6 alk-C1-12 heterocyclyl (e.g., C1-6 alk-C1-12 heteroaryl); (26) oxo; and (27) (C1-12 heterocyclyl)imino. In some embodiments, each of these groups can be further substituted as described herein. For example, the alkylene group of a C1-alkaryl or a C1-alkheterocyclyl can be further substituted with an oxo group to afford the respective aryloyl and (heterocyclyl)oyl substituent group.

The term “(heterocyclyl)imino,” as used herein, represents a heterocyclyl group, as defined herein, attached to the parent molecular group through an imino group. In some embodiments, the heterocyclyl group can be substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “(heterocyclyl)oxy,” as used herein, represents a heterocyclyl group, as defined herein, attached to the parent molecular group through an oxygen atom. In some embodiments, the heterocyclyl group can be substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “(heterocyclyl)oyl,” as used herein, represents a heterocyclyl group, as defined herein, attached to the parent molecular group through a carbonyl group. In some embodiments, the heterocyclyl group can be substituted with 1, 2, 3, or 4 substituent groups as defined herein.
The term “hydrocarbon,” as used herein, represents a group consisting only of carbon and hydrogen atoms.
The term “hydroxy,” as used herein, represents an —OH group.
The term “hydroxyalkyl,” as used herein, represents an alkyl group, as defined herein, substituted by one to three hydroxy groups, with the proviso that no more than one hydroxy group may be attached to a single carbon atom of the alkyl group, and is exemplified by hydroxymethyl, dihydroxypropyl, and the like.
The term “isomer,” as used herein, means any tautomer, stereoisomer, enantiomer, or diastereomer of any compound of the invention. It is recognized that the compounds of the invention can have one or more chiral centers and/or double bonds and, therefore, exist as stereoisomers, such as double-bond isomers (i.e., geometric E/Z isomers) or diastereomers (e.g., enantiomers (i.e., (+) or (−)) or cis/trans isomers). According to the invention, the chemical structures depicted herein, and therefore the compounds of the invention, encompass all of the corresponding stereoisomers, that is, both the stereomerically pure form (e.g., geometrically pure, enantiomerically pure, or diastereomerically pure) and enantiomeric and stereoisomeric mixtures, e.g., racemates. Enantiomeric and stereoisomeric mixtures of compounds of the invention can typically be resolved into their component enantiomers or stereoisomers by well-known methods, such as chiral-phase gas chromatography, chiral-phase high performance liquid chromatography, crystallizing the compound as a chiral salt complex, or crystallizing the compound in a chiral solvent. Enantiomers and stereoisomers can also be obtained from stereomerically or enantiomerically pure intermediates, reagents, and catalysts by well-known asymmetric synthetic methods.
The term “N-protected amino,” as used herein, refers to an amino group, as defined herein, to which is attached one or two N-protecting groups, as defined herein.
The term “N-protecting group,” as used herein, represents those groups intended to protect an amino group against undesirable reactions during synthetic procedures. Commonly used N-protecting groups are disclosed in Greene, “Protective Groups in Organic Synthesis,” 3rd Edition (John Wiley & Sons, New York, 1999), which is incorporated herein by reference. N-protecting groups include acyl, aryloyl, or carbamyl groups such as formyl, acetyl, propionyl, pivaloyl, t-butylacetyl, 2-chloroacetyl, 2-bromoacetyl, trifluoroacetyl, trichloroacetyl, phthalyl, o-nitrophenoxyacetyl, a-chlorobutyryl, benzoyl, 4-chlorobenzoyl, 4-bromobenzoyl, 4-nitrobenzoyl, and chiral auxiliaries such as protected or unprotected D, L or D, L-amino acids such as alanine, leucine, phenylalanine, and the like; sulfonyl-containing groups such as benzenesulfonyl, p-toluenesulfonyl, and the like; carbamate forming groups such as benzyloxycarbonyl, p-chlorobenzyloxycarbonyl, p-methoxybenzyloxycarbonyl, p-nitrobenzyloxycarbonyl, 2-nitrobenzyloxycarbonyl, p-bromobenzyloxycarbonyl, 3,4-dimethoxybenzyloxycarbonyl, 3,5-dimethoxybenzyl oxycarbonyl, 2,4-dimethoxybenzyloxy carbonyl, 4-methoxybenzyloxycarbonyl, 2-nitro-4,5-dimethoxybenzyloxycarbonyl, 3,4,5-trimethoxybenzyloxycarbonyl, 1-(p-biphenylyl)-1-methylethoxycarbonyl, α,α-dimethyl-3,5-dimethoxybenzyloxycarbonyl, benzhydryloxy carbonyl, t-butyloxycarbonyl, diisopropyl methoxycarbonyl, isopropyloxycarbonyl, ethoxycarbonyl, methoxycarbonyl, allyloxycarbonyl, 2,2,2,-trichloroethoxycarbonyl, phenoxycarbonyl, 4-nitrophenoxy carbonyl, fluorenyl-9-methoxycarbonyl, cyclopentyloxycarbonyl, adamantyloxycarbonyl, cyclohexyloxycarbonyl, phenylthiocarbonyl, and the like, alkaryl groups such as benzyl, triphenylmethyl, benzyloxymethyl, and the like and silyl groups such as trimethylsilyl, and the like. Preferred N-protecting groups are formyl, acetyl, benzoyl, pivaloyl, t-butylacetyl, alanyl, phenylsulfonyl, benzyl, t-butyloxycarbonyl (Boc), and benzyloxycarbonyl (Cbz).
The term “nitro,” as used herein, represents an —NO2 group.
The term “oxo” as used herein, represents ═O.
The term “perfluoroalkyl,” as used herein, represents an alkyl group, as defined herein, where each hydrogen radical bound to the alkyl group has been replaced by a fluoride radical. Perfluoroalkyl groups are exemplified by trifluoromethyl, pentafluoroethyl, and the like.
The term “perfluoroalkoxy,” as used herein, represents an alkoxy group, as defined herein, where each hydrogen radical bound to the alkoxy group has been replaced by a fluoride radical. Perfluoroalkoxy groups are exemplified by trifluoromethoxy, pentafluoroethoxy, and the like.
The term “pharmaceutical composition,” as used herein, represents a composition containing a compound described herein formulated with a pharmaceutically acceptable excipient, and manufactured or sold with the approval of a governmental regulatory agency as part of a therapeutic regimen for the treatment of disease in a mammal. Pharmaceutical compositions can be formulated, for example, for oral administration in unit dosage form (e.g., a tablet, capsule, caplet, gelcap, or syrup); for topical administration (e.g., as a cream, gel, lotion, or ointment); for intravenous administration (e.g., as a sterile solution free of particulate emboli and in a solvent system suitable for intravenous use); or in any other pharmaceutically acceptable formulation.
A “pharmaceutically acceptable excipient,” as used herein, refers any ingredient other than the compounds described herein (for example, a vehicle capable of suspending or dissolving the active compound) and having the properties of being substantially nontoxic and non-inflammatory in a patient. Excipients may include, for example: antiadherents, antioxidants, binders, coatings, compression aids, disintegrants, dyes (colors), emollients, emulsifiers, fillers (diluents), film formers or coatings, flavors, fragrances, glidants (flow enhancers), lubricants, preservatives, printing inks, sorbents, suspensing or dispersing agents, sweeteners, and waters of hydration. Exemplary excipients include, but are not limited to: butylated hydroxytoluene (BHT), calcium carbonate, calcium phosphate (dibasic), calcium stearate, croscarmellose, crosslinked polyvinyl pyrrolidone, citric acid, crospovidone, cysteine, ethylcellulose, gelatin, hydroxypropyl cellulose, hydroxypropyl methylcellulose, lactose, magnesium stearate, maltitol, mannitol, methionine, methylcellulose, methyl paraben, microcrystalline cellulose, polyethylene glycol, polyvinyl pyrrolidone, povidone, pregelatinized starch, propyl paraben, retinyl palmitate, shellac, silicon dioxide, sodium carboxymethyl cellulose, sodium citrate, sodium starch glycolate, sorbitol, starch (corn), stearic acid, sucrose, talc, titanium dioxide, vitamin A, vitamin E, vitamin C, and xylitol.
The term “pharmaceutically acceptable prodrugs,” as used herein, represents those prodrugs of the compounds of the present invention which are, within the scope of sound medical judgment, suitable for use in contact with the tissues of humans and animals with undue toxicity, irritation, allergic response, and the like, commensurate with a reasonable benefit/risk ratio, and effective for their intended use, as well as the zwitterionic forms, where possible, of the compounds of the invention.
The term “pharmaceutically acceptable salt,” as use herein, represents those salts which are, within the scope of sound medical judgment, suitable for use in contact with the tissues of humans and animals without undue toxicity, irritation, allergic response and the like and are commensurate with a reasonable benefit/risk ratio. Pharmaceutically acceptable salts are well known in the art. For example, pharmaceutically acceptable salts are described in: Berge et al., J. Pharm. Sci. 66(1):1-19, 1977 and in Pharmaceutical Salts: Properties, Selection, and Use, P. H. Stahl and C. G. Wermuth (eds.), Wiley-VCH, 2008. The salts can be prepared in situ during the final isolation and purification of the compounds of the invention or separately by reacting the free base group with a suitable organic acid. Representative acid addition salts include acetate, adipate, alginate, ascorbate, aspartate, benzenesulfonate, benzoate, bisulfate, borate, butyrate, camphorate, camphorsulfonate, citrate, cyclopentanepropionate, digluconate, dodecylsulfate, ethanesulfonate, fumarate, glucoheptonate, glycerophosphate, hemisulfate, heptonate, hexanoate, hydrobromide, hydrochloride, hydroiodide, 2-hydroxy-ethanesulfonate, lactobionate, lactate, laurate, lauryl sulfate, malate, maleate, malonate, methanesulfonate, 2-naphthalenesulfonate, nicotinate, nitrate, oleate, oxalate, palmitate, pamoate, pectinate, persulfate, 3-phenylpropionate, phosphate, picrate, pivalate, propionate, stearate, succinate, sulfate, tartrate, thiocyanate, toluenesulfonate, undecanoate, valerate salts, and the like. Representative alkali or alkaline earth metal salts include sodium, lithium, potassium, calcium, magnesium, and the like, as well as nontoxic ammonium, quaternary ammonium, and amine cations, including, but not limited to ammonium, tetramethylammonium, tetraethylammonium, methylamine, dimethylamine, trimethylamine, triethylamine, ethylamine, and the like.
The terms “pharmaceutically acceptable solvate,” as used herein, means a compound of the invention wherein molecules of a suitable solvent are incorporated in the crystal lattice. A suitable solvent is physiologically tolerable at the dosage administered. For example, solvates may be prepared by crystallization, recrystallization, or precipitation from a solution that includes organic solvents, water, or a mixture thereof. Examples of suitable solvents are ethanol, water (for example, mono-, di-, and tri-hydrates), N-methylpyrrolidinone (NMP), dimethyl sulfoxide (DMSO), N,N′-dimethylformamide (DMF), N,N′-dimethylacetamide (DMAC), 1,3-dimethyl-2-imidazolidinone (DMEU), 1,3-dimethyl-3,4,5,6-tetrahydro-2-(1H)-pyrimidinone (DMPU), acetonitrile (ACN), propylene glycol, ethyl acetate, benzyl alcohol, 2-pyrrolidone, benzyl benzoate, and the like. When water is the solvent, the solvate is referred to as a “hydrate.”
The term “prodrug,” as used herein, represents compounds that are rapidly transformed in vivo to the parent compound of the above formula, for example, by hydrolysis in blood. Prodrugs of the compounds of the invention may be conventional esters. Some common esters that have been utilized as prodrugs are phenyl esters, aliphatic (C1-8 or C8-24) esters, cholesterol esters, acyloxymethyl esters, carbamates, and amino acid esters. For example, a compound of the invention that contains an OH group may be acylated at this position in its prodrug form. A thorough discussion is provided in T. Higuchi and V. Stella, “Pro-drugs as Novel Delivery Systems,” in: Bioreversible Carriers in Drug Design, A.C.S. Symposium Series, Edward B. Roche (ed.), American Pharmaceutical Association and Pergamon Press, 1987, vol. 14; and Judkins et al., Synth. Commun. 26(23):4351-4367, 1996, each of which is incorporated herein by reference. Preferably, prodrugs of the compounds of the present invention are suitable for use in contact with the tissues of humans and animals with undue toxicity, irritation, allergic response, and the like, commensurate with a reasonable benefit/risk ratio, and effective for their intended use.
The term “spirocyclyl,” as used herein, represents a C2-7 alkylene diradical, both ends of which are bonded to the same carbon atom of the parent group to form a spirocyclic group, and also a C1-6 heteroalkylene diradical, both ends of which are bonded to the same atom. The heteroalkylene radical forming the spirocyclyl group can containing one, two, three, or four heteroatoms independently selected from the group consisting of nitrogen, oxygen, and sulfur. In some embodiments, the spirocyclyl group includes one to seven carbons, excluding the carbon atom to which the diradical is attached. The spirocyclyl groups of the invention may be optionally substituted with 1, 2, 3, or 4 substituents provided herein as optional substituents for cycloalkyl and/or heterocyclyl groups.
The term “stereoisomer,” as used herein, refers to all possible different isomeric as well as conformational forms which a compound may possess (e.g., a compound of any formula described herein, such as formulas (I), (I-2), (Ia), (Ia-2), (Ib), (Ib-2), (IIa), (IIa-2), (IIb), (IIb-2), (IIc), (IIc-2), (IId), (IId-2), (IIe), (Ile-2), (IIf), (IIf-2), (V), (V-2), (VI), (VI-2), (VII), (VII-2), (VIII), (VIII-2), (IX), (IX-2), (X), and (X-2)), in particular all possible stereochemically and conformationally isomeric forms, all diastereomers, enantiomers and/or conformers of the basic molecular structure. Some compounds of the present invention may exist in different tautomeric forms, all of the latter being included within the scope of the present invention.
The term “sulfonyl,” as used herein, represents an —S(O)2— group.
The term “thioalkaryl,” as used herein, represents a chemical substituent of formula —SR, where R is an alkaryl group. In some embodiments, the alkaryl group can be further substituted with 1, 2, 3, or 4 substituent groups as described herein.
The term “thioalkheterocyclyl,” as used herein, represents a chemical substituent of formula —SR, where R is an alkheterocyclyl group. In some embodiments, the alkheterocyclyl group can be further substituted with 1, 2, 3, or 4 substituent groups as described herein.
The term “thioalkoxy,” as used herein, represents a chemical substituent of formula —SR, where R is an alkyl group. In some embodiments, the alkyl group can be further substituted with 1, 2, 3, or 4 substituent groups as described herein.
The term “thiol” represents an —SH group.
As used herein, and as well understood in the art, “treatment” is an approach for obtaining beneficial or desired results, for example, clinical results. Beneficial or desired results can include, but are not limited to, alleviation or amelioration of one or more symptoms or conditions; diminishment of extent of disease, disorder, or condition; stabilization (i.e., not worsening) of a state of disease, disorder, or condition; prevention of spread of disease, disorder, or condition; delay or slowing the progress of the disease, disorder, or condition; amelioration or palliation of the disease, disorder, or condition; remission (whether partial or total), whether detectable or undetectable; and improvement of a disease, disorder, or condition by employing an agent (e.g., a compound of the invention) in combination with another specific agent or therapy directed toward treating the disease, disorder, or condition. “Palliating” a disease, disorder, or condition means that the extent and/or undesirable clinical manifestations of the disease, disorder, or condition are lessened and/or time course of the progression is slowed or lengthened, as compared to the extent or time course in the absence of treatment. “Prophylactically treating” a disease, disorder, or condition means that treatment is provided to the subject prior to the onset of symptoms of the disease, disorder, or condition.
Other features and advantages of the invention will be apparent from the following detailed description, the drawings, and the claims.



BRIEF DESCRIPTION OF THE DRAWINGS
FIGS. 1A-1C are spectra for compound 1, including those for NMR (FIG. 1A), LC-MS (FIG. 1B), and MS (FIG. 1C) spectroscopy. In FIG. 1B, inset tables provide data for each peak [#] in the following order: retention time (in minutes, min), type, width (in minutes, min), area, height, and area (in %).
FIGS. 2A-2B are HPLC spectra for compound 1 at 214 nm (FIG. 2A) and at 254 nm (FIG. 2B).
FIGS. 3A-3C are spectra for compound 5, including those for NMR (FIG. 3A), LC-MS (FIG. 3B), and MS (FIG. 3C) spectroscopy. In FIG. 3B, inset tables provide data for each peak [#] in the following order: retention time (in minutes, min), type, width (in minutes, min), area, height, and area (in %).
FIGS. 4A-4B are HPLC spectra for compound 5 at 214 nm (FIG. 4A) and at 254 nm (FIG. 4B).



DETAILED DESCRIPTION
The invention features novel tryptoline derivatives of formulas (I), (I-2), (Ia), (Ia-2), (Ib), (Ib-2), (IIa), (IIa-2), (IIb), (IIba-2), (IIc), (IIc-2), (IId), (IId-2), (IIe), (IIe-2), (IIf), (IIf-2), (V), (V-2), (VI), (VI-2), (VII), (VII-2), (VIII), (VIII-2), (IX), (IX-2), (X), and (X-2), and related compounds, having kinase (e.g., BTK) inhibitory activity, pharmaceutical and diagnostic compositions containing them, and their medical uses. Exemplary compounds of the invention are shown in Table 1, including stereoisomers (e.g., diastereomers or enantiomers), pharmaceutically acceptable salts, or pharmaceutically acceptable prodrugs thereof.









TABLE 1





No.
Structure
Name

















1




(R)-2-(3- ((benzo[c][1,2,5]thiadiazol-5- ylamino)methyl)furan-2- carbonyl)-N-methyl-2,3,4,9- tetrahydro-1H-pyrido[3,4- b]indole-3-carboxamide


 


2




(R)-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


3




(R)-2-(3-((benzo[d]oxazol-6- ylamino)methyl)furan-2- carbonyl)-N-methyl-2,3,4,9- tetrahydro-1H-pyrido[3,4- b]indole-3-carboxamide


 


4




(R)-N-(2-methoxyethyl)-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


5




(R)-N-methyl-2-(4- ((quinoxalin-6- ylamino)methyl)-1H-pyrazole- 5-carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


6




(3,4-dihydro-1H-pyrido[3,4- b]indol-2(9H)-yl)(3- ((quinoxalin-6- ylamino)methyl)furan-2- yl)methanone


 


7




(R)-2-(3-(((1H-indazol-6- yl)amino)methyl)furan-2- carbonyl)-N-methyl-2,3,4,9- tetrahydro-1H-pyrido[3,4- b]indole-3-carboxamide


 


8




(R)-2-(3-((1H-indazol-5- yl)amino)methyl)furan-2- carbonyl)-N-methyl-2,3,4,9- tetrahydro-1H-pyrido[3,4- b]indole-3-carboxamide


 


9




(R)-2-(3-(((1H- benzo[d]imidazol-6- yl)amino)methyl)furan-2- carbonyl)-N-methyl-2,3,4,9- tetrahydro-1H-pyrido[3,4- b]indole-3-carboxamide


 


10




(R)-N,9-dimethyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


11




(R)-N-methyl-2-(3-((2-methyl- quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


12




(R)-N-methyl-2-(3-(((3- methyl-2-oxo-1,2- dihydroquinoxalin-6- yl)amino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


13




(3,4-dihydro-1H-pyrido[3,4- b]indol-2(9H)-yl)(3-((3-oxo- 4H-quinoxalin-6- ylamino)methyl)furan-2- yl)methanone


 


14




(R)-N-methyl-2-(5- ((quinoxalin-6- ylamino)methyl)-1,3-thiazol-4- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


15




7-fluoro-(3,4-dihydro-1H- pyrido[3,4-b]indol-2(9H)- yl)(3-((quinoxalin-6- ylamino)methyl)furan-2- yl)methanone


 


16




(R)-2-(3-((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


17




(R)-2-(3-((benzo[d]thiazol-6- ylamino)methyl)furan-2- carbonyl)-N-methyl-2,3,4,9- tetrahydro-1H-pyrido[3,4- b]indole-3-carboxamide


 


18




(R)-6-fluoro-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


19




(R)-N-methyl-2-(3- ((quinoxalin-6- yloxy)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


20




(R)-6-fluoro-N-methyl-2-(5- ((quinoxalin-6- ylamino)methyl)thiazole-4- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


21




(R)-5-fluoro-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


22




(R)-2-(3- ((benzo[c][1,2,5]thiadiazol-5- ylamino)methyl)furan-2- carbonyl)-5-fluoro-N-methyl- 2,3,4,9-tetrahydro-1H- pyrido[3,4-b]indole-3- carboxamide


 


23




(R)-5-fluoro-N-methyl-2-(5- ((quinoxalin-6- ylamino)methyl)thiazole-4- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


24




(R)-(3-(1,3,4-oxadiazol-2-yl)- 3,4-dihydro-1H-pyrido[3,4- b]indol-2(9H)-yl)(3- ((quinoxalin-6- ylamino)methyl)furan-2- yl)methanone


 


25




5-fluoro-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


26




(R)-5-fluoro-N-methyl-2-(3- ((methyl(quinoxalin-6- yl)amino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


27




(R)-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)thiophene-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


28




(R)-N-methyl-2-(2- ((quinoxalin-6- ylamino)methyl)furan-3- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


29




6-fluoro-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


30




(R)-(3-(1,3,4-oxadiazol-2-yl)- 3,4-dihydro-1H-pyrido[3,4- b]indol-2(9H)-yl)(3- ((quinoxalin-6- yloxy)methyl)furan-2- yl)methanone


 


31




(R)-5-fluoro-N-isopropyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


32




(R)-N-methyl-2-(4- ((quinoxalin-6- ylamino)methyl)-1H- imidazole-5-carbonyl)-2,3,4,9- tetrahydro-1H-pyrido[3,4- b]indole-3-carboxamide


 


33




(R)-5-fluoro-N,N-dimethyl-2- (5-((quinoxalin-6- ylamino)methyl)thiazole-4- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


34




(R)-2-(2-((quinoxalin-6- ylamino)methyl)furan-3- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxylic acid


 


35




(R)-N-methyl-2-(3-(((3-oxo- 3,4-dihydroquinoxalin-6- yl)amino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


36




(R)-6-fluoro-N,N-dimethyl-2- (5-((quinoxalin-6- ylamino)methyl)thiazole-4- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


37




(R)-6-fluoro-N-methyl-2-(2- ((quinoxalin-6- ylamino)methyl)furan-3- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


38




(R)-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)picolinoyl)- 2,3,4,9-tetrahydro-1H- pyrido[3,4-b]indole-3- carboxamide


 


39




(R)-N-methyl-2-(4- ((quinoxalin-6- ylamino)methyl)thiazole-5- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


40




(R)-(5-fluoro-2-(5- ((quinoxalin-6- ylamino)methyl)thiazole-4- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indol-3- yl)(morpholino)methanone


 


41




(R)-(6-fluoro-2-(5- ((quinoxalin-6- ylamino)methyl)thiazole-4- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indol-3- yl)(morpholino)methanone


 


42




(3,4-dihydro-1H-pyrido[3,4- b]indol-2(9H)-yl)(5- ((quinoxalin-6- ylamino)methyl)thiazol-4- yl)methanone


 


43




(R)-2-(3- ((benzo[c][1,2,5]thiadiazol-5- yl(methyl)amino)methyl)furan- methyl-2,3,4,9-tetrahydro-1H- pyrido[3,4-b]indole-3- carboxamide


 


44




(R)-N-methyl-2-(2-((quinolin- 6-ylamino)methyl)furan-3- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


45




(R)-N-methyl-2-(2- ((quinoxalin-6- ylamino)methyl)benzoyl)- 2,3,4,9-tetrahydro-1H- pyrido[3,4-b]indole-3- carboxamide


 


46




(R)-N-methyl-2-(3-(((2-oxo- 1,2-dihydroquinoxalin-6- yl)amino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


47




(R)-5-fluoro-N-methyl-2-(3- ((quinoxalin-6- yloxy)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


48




(R)-1-methyl-N-methyl-2-(3- ((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide


 


49




(R)-1,1-dimethyl-N-methyl-2- (3-((quinoxalin-6- ylamino)methyl)furan-2- carbonyl)-2,3,4,9-tetrahydro- 1H-pyrido[3,4-b]indole-3- carboxamide









Exemplary methods for synthesizing compounds of the invention are described herein.
Methods of Preparing Compounds of the Invention
The compounds of the invention can be prepared by processes analogous to those established in the art, for example, by the reaction sequences shown in Schemes 1-5. The numbering system used for the general schemes does not necessarily correspond to that employed elsewhere in the description or in the claims.
A compound of formula E-1 can be prepared under standard coupling or acylation conditions by treating a compound of formula C-1 with a compound of formula D-1, or suitable protected derivatives thereof, and “LG” is a leaving group, such as chloro, bromo, iodo, hydroxy, or sulfonate (e.g., mesylate, tosylate, or triflate) (see Scheme 1). Suitable protected derivatives included, for example, compounds of formula C-1 with R10, which can be H or any useful N-protecting group, such as those described herein. Exemplary coupling conditions are described below.




A compound of formula G-1 can be prepared by a coupling reaction between compounds of formulas E-1 and F-1, under standard conditions. For example, if the compound of formula E-1 or F-1 includes an aldehyde or a ketone group, then reductive amination conditions can be used, such as a reducing agent (e.g., NaBH4, NaBH(OAc)3, NaCNBH4, and the like, in an alcoholic solvent, such as ethanol) or the combination of a silane reagent (e.g., Et3SiH, phenylsilanes (e.g., PhSiH3), halosilanes (e.g., trichlorosilane), or silylsilanes (e.g., tris(trimethylsilyl)silane))) with catalytic InX3, FeX3, CuX, Ni[ligand]2, PtX2, Pd[ligand]2, PdX2[ligand]2, or Ir[X(ligand)]2, where each X is independently halo (e.g., bromo or chloro) and each ligand is any useful ligand (e.g., 1,5-cyclooctadiene, OAc, or PPh3). Alternatively, if E-1 and F-1 reacts to form an NH—C(O) moiety (e.g., where E-1 includes a carboxy and F-1 includes an amino, as defined herein, or vice versa), then any of the coupling reactions for peptides can be used (e.g., as described herein).
Alternatively, the compounds of formula D-1 and F-1 are reacted first, and then the resultant compound is then reacted with a compound of formula E-1 to produce a compound of formula G-1, under standard conditions. For example, if the compound of formula D-1 or F-1 includes an aldehyde or a ketone group, then reductive amination or acylation conditions can be used, such as any described herein.
Alternatively, the compounds of the invention can be prepared by first reacting a linking group (e.g., L in formula (I) or (Ia)) with an optionally substituted bicyclic C1-12 heterocyclyl (e.g., Y in formula (I) or (Ia)) and then reacting the linking group-heterocyclyl construct with the tryptoline derivative core. For example, a linking group of formula H-2 can be prepared by treating a compound of formula D-2, or a suitable protected derivative thereof (e.g., an acetal derivative), with a compound of formula F-2 (see Scheme 2). Then, the product can be subjected to reductive conditions, such as the reductive amination conditions described above.




A compound of formula G-2 can be prepared under standard coupling of acylation conditions by treating a compound of formula C-2 with a compound of formula H-2, or suitable protected derivatives thereof.
For the reactions in Schemes 1 and 2, any useful coupling or acylation conditions can be used, such as those used for NH—C(O) coupling in peptide synthesis. Exemplary coupling reagents include one or more of the following reagents: dicyclohexylcarbodiimide (DCC), diisopropylcarbodiimide (DIC), 1-hydroxy-benzotriazole (HOBt), 1-hydroxy-7-aza-benzotriazole (HOAt), dimethoxy-1,3,5-triazin-2-yl)-4-methylmorpholin-4-ium chloride (DMTMMCl) either with or without 4-methylmorpholine (NMM), 2-chloro-4,6-dimethoxy-1,3,5-triazine (CDMT) either with or without NMM, O-benzotriazole-N,N,N′,N′-tetramethyl-uronium-hexafluoro-phosphate (HBTU), 2-(7-aza-1H-benzotriazole-1-yl)-1,1,3,3-tetramethyluronium hexafluorophosphate (HATU), [(6-chlorobenzotriazol-1-yl)oxy-(dimethylamino)methylidene]-dimethylazanium hexafluorophosphate (HCTU), [benzotriazol-1-yloxy(dimethylamino)methylidene]-dimethylazanium tetrafluoroborate (TBTU), benzotriazol-1-yloxy(tripyrrolidin-1-yl)phosphanium hexafluorophosphate (PyBOP), chloro(tripyrrolidin-1-yl)phosphanium hexafluorophosphate (PyClop), propylphosphonic anhydride (T3P®), (1-cyano-2-ethoxy-2-oxoethylidenaminooxy)dimethylamino-morpholino-carbenium hexafluorophosphate (COMU), ethyl (hydroxyimino)cyanoacetate (Oxyma), and O—[(ethoxycarbonyl)cyanomethylen amino]-N,N,N′,N′-tetramethyluronium hexafluorophosphate (HOTU).
The tryptoline derivative core can be prepared by any useful process. For example, a compound of formula B-3 can be prepared by reacting with formalin to form an intermediate and condensing the intermediate to form a compound of formula C-3. In particular embodiments, B-3 is a derivatized D-tryptophan, L-tryptophan, or mixture of DL-tryptophan.




Furthermore, various tryptoline derivatives are commercially available, including L-1,2,3,4-tetrahydronorharman-3-carboxylic acid, D-1,2,3,4-tetrahydronorharman-3-carboxylic acid, Boc-L-1,2,3,4-tetrahydronorharman-3-carboxylic acid, Boc-D-1,2,3,4-tetrahydronorharman-3-carboxylic acid, Fmoc-L-1,2,3,4-tetrahydronorharman-3-carboxylic acid, and Fmoc-D-1,2,3,4-tetrahydronorharman-3-carboxylic acid, which are available from PepTech Corporation (Burlington, Mass.) and Matrix Scientific (Columbia, S.C.); and Fmoc-DL-6-methoxy-1,2,3,4-tetrahydronorharman-1-carboxylic acid, Boc-DL-6-methoxy-1,2,3,4-tetrahydronorharman-1-carboxylic acid, which are available from Matrix Scientific.
Alternatively, compounds of formula C-5, in which A comprises an optionally substituted amino group —N(RN1)2, as defined herein, can be prepared by reaction between a compound of formula C-4 with a compound of formula J-1 (see Scheme 4). Optionally, if R10 is an N-protecting group, e.g., any described herein, then an additional deprotection step can be included to produce a compound of formula C-6.




Linkers between the optionally substituted bicyclic C1-12 heterocyclyl (e.g., Y in formula (I) or (Ia)) and the tryptoline derivative core can be prepared by any useful process. For example, a compound of formula L-la can be carboxylated (e.g., with a lithium agent, such as n-BuLi, and CO2) to produce a compound of formula L-1b. Alternatively, a compound of formula L-2a can be reacted with a C—H activation agent and a compound of formula K-1 to produce a compound of formula L-2b (see Scheme 5). Exemplary C—H activation agents for a heterocyclyl include iridium-catalyzed borylation e.g., Ir(I)-2′,2′-bipyridine complexes, such as those having bis(pinocolato)diboron or pinacolborne ligands; and mixed-metal reagents, such as mixed reagents including lithium, e.g., Li(TMP)Zn(tBu)2, where TMP is 2,2,6,6-tetramethylpiperidino; Li(TMP)Al(i-Bu)3; Li2(TMP)2RCu(CN), where R can alkyl, aryl, or TMP; and ZnCl2-TMEDA (0.5 equivalent) with Li(TMP) (1.5 equivalents). Additional steps further include reacting compounds of formula L-2b with an oxidation reagent to convert LG to a carboxyl group. Any of the these linkers can be used in the preparation of the compounds of the invention, such as described in Schemes 1 and 2 above.




In some cases the chemistry outlined herein may have to be modified, for instance, by the use of protective groups to prevent side reactions of reactive groups, e.g., those attached as substituents. This may be achieved by means of conventional protecting groups as described in Protective Groups in Organic Chemistry, McOmie, Ed., Plenum Press, 1973, and in Greene and Wuts, Protective Groups in Organic Synthesis, John Wiley & Sons, 3rd Edition, 1999.
The compounds of the invention, and intermediates in the preparation of the compounds of the invention, may be isolated from their reaction mixtures and purified (if necessary) using conventional techniques, including extraction, chromatography, distillation, and recrystallization.
The formation of a desired compound salt is achieved using standard techniques. For example, the neutral compound is treated with an acid in a suitable solvent, and the formed salt is isolated by filtration, extraction, crystallization, or any other suitable method.
The formation of solvates of the compounds of the invention will vary depending on the compound and the solvate. In general, solvates are formed by dissolving the compound in the appropriate solvent and isolating the solvate by cooling or adding an antisolvent. The solvate is typically dried or azeotroped under ambient conditions.
Preparation of an optical isomer of a compound of the invention may be performed by reaction of the appropriate optically active starting materials under reaction conditions which will not cause racemization. Alternatively, the individual enantiomers may be isolated by separation of a racemic mixture using standard techniques, such as, for example, fractional crystallization or chiral HPLC.
A radiolabeled compound of the invention may be prepared using standard methods known in the art. For example, tritium may be incorporated into a compound of the invention using standard techniques, such as, for example, by hydrogenation of a suitable precursor to a compound of the invention using tritium gas and a catalyst. Alternatively, a compound of the invention containing radioactive iodine may be prepared from the corresponding trialkyltin (suitably trimethyltin) derivative using standard iodination conditions, such as [125I] sodium iodide in the presence of chloramine-T in a suitable solvent, such as dimethylformamide. The trialkyltin compound may be prepared from the corresponding non-radioactive halogen, suitably iodo, compound using standard palladium-catalyzed stannylation conditions, such as, for example, hexamethylditin in the presence of tetrakis(triphenylphosphine) palladium (0) in an inert solvent, such as dioxane, and at elevated temperatures, preferably 50-100° C.
Pharmaceutical Uses
The present invention features all uses for compounds of the invention, including use in therapeutic methods. The compounds of the invention have useful BTK inhibiting activity, and therefore are useful to treat, prevent, or reduce the risk of, diseases or conditions that are ameliorated by a reduction in BTK activity, such as a B-cell related disorder or a mast cell related disorder (e.g., any disorder described herein).
Cancer
BTK is a key regulator in B-cell development, differentiation, and signaling, as well as in mast cell activation. Accordingly, activation of BTK has been implicated in the pathology of numerous proliferative disorders, including B-cell, mast cell, and other non-B-cell associated cancers.
Exemplary proliferative disorders (e.g., cancers) include leukemia, including acute myeloid leukemia (AML), acute lymphocytic leukemia (ALL), chronic myeloid leukemia (CML), chronic lymphocytic leukemia (CLL), hairy cell leukemia, chronic myelomonocytic leukemia (CMML), juvenile myelomonocytic leukemia (JMML), and B-cell prolymphocytic leukemia (B-PLL); lymphomas, including Hodgkin and non-Hodgkin lymphoma, such as B-cell lymphomas (e.g., diffuse large B-cell lymphoma (e.g., mediastinal (thymic) large B-cell lymphoma and intravascular large B-cell lymphoma), follicular lymphoma, small lymphocytic lymphoma (SLL), chronic lymphocytic leukemia/small lymphocytic lymphoma (CLL/SLL), mantle cell lymphoma (e.g., relapsed or refractory), marginal zone B-cell lymphomas (e.g., extranodal marginal zone B-cell lymphoma, nodal marginal zone B-cell lymphoma, and splenic marginal zone lymphoma), Burkitt lymphoma, lymphoplasmacytic lymphoma (Waldenstrom macroglobulinemia), hairy cell leukemia, primary central nervous system (CNS) lymphoma, primary effusion lymphoma, and lymphomatoid granulomatosis); myelomas, including multiple myeloma (plasma cell myeloma), plasmacytoma, localized myeloma, and extramedullary myeloma; and other cancers, such as pancreatic neoplasms, including pancreatic exocrine tumors (e.g., ductal adenocarcinoma, signet ring cell carcinomas, hepatoid carcinomas, colloid carcinomas, undifferentiated carcinomas, and undifferentiated carcinomas with osteoclast-like giant cells), pancreatic cystic neoplasms (e.g., mucinous cystadenoma, serous cystadenoma, and mucinous ductal ectasia), pancreatic neuroendocrine tumors (e.g., insulinoma, glucagonoma, gastrinoma (Zollinger-Ellison syndrome), VIPoma, and somatostatinoma), papillary cystic neoplasms of the pancreas, lymphoma of the pancreas, and acinar cell tumors of the pancreas; malignant glioma; and papillary thyroid cancer.
Inflammatory Disorders (Including Autoimmune Disorders)
Inhibition of BTK has been shown to mitigate inflammation and/or suppress the production of inflammatory cytokines. Accordingly, the compounds of the invention can be used to treat or prophylactically treat inflammatory disorders, including autoimmune disorders.
Exemplary inflammatory or autoimmune disorders include rheumatoid arthritis, systemic lupus erythematosus (and associated glomerulonephritis), multiple sclerosis, and asthma. Further exemplary disorders include acute disseminated encephalomyelitis, Addison's disease, allergy, alopecia universalis, Alzheimer's disease, ankylosing spondylitis, antiphospholipid antibody syndrome, aplastic anemia, appendicitis, atherosclerosis, autoimmune arthritis (e.g., rheumatoid arthritis, psoriatic arthritis, ankylosing spondylitis, Still's disease, juvenile arthritis, and mixed and undifferentiated connective tissue diseases), autoimmune hemolytic and thrombocytopenic states (e.g., autoimmune-mediated hemolytic anemia, e.g., warm autoimmune hemolytic anemia, cold autoimmune hemolytic anemia, cold agglutinin disease, and paroxysmal cold hemoglobinuria), autoimmune hepatitis, Behçet's disease, blepharitis, bronchiolitis, bronchitis, bursitis, celiac disease, cervicitis, cholangitis, cholecystitis, chronic fatigue, chronic idiopathic thrombocytopenic purpura (ITP), colitis, conjunctivitis, Crohn's disease, cystitis, dacryoadenitis, dermatitis (including contact dermatitis), dermatomyositis, diabetes, dysautonomia, eczema, encephalitis, endocarditis, endometriosis, endometritis, enteritis, enterocolitis, epicondylitis, epididymitis, fasciitis, fibromyalgia (fibrositis), gastritis, gastroenteritis, gingivitis, glomerulonephritis, Goodpasture's syndrome (and associated glomerulonephritis and pulmonary hemorrhage), Graves' disease, Guillain-Barré syndrome, Hashimoto's thyroiditis, hepatitis, hidradenitis suppurativa, hyperacute rejection of transplanted organs, idiopathic thrombocytopenic purpura (ITP), inflammatory bowel disease (including Crohn's disease and ulcerative colitis), inflammatory pelvic disease, interstitial cystitis, irritable bowel syndrome, juvenile arthritis, juvenile idiopathic arthritis, laryngitis, mastitis, meningitis, multiple vasculitides, myasthenia gravis, myelitis myocarditis, myocarditis, myositis, nephritis, neuromyotonia, oophoritis, opsoclonus-myoclonus syndrome, optic neuritis, orchitis, Ord's thyroiditis, osteitis, osteoarthritis, osteomyelitis, otitis, pancreatitis, Parkinson's disease, parotitis, pericarditis, peritonitis, pharyngitis, phlebitis, pleuritis, pneumonia, pneumonitis, primary biliary cirrhosis, proctitis, prostatitis, psoriasis (including psoriatic lesions in the skin), psoriatic arthritis, pyelonephritis, Reiter's syndrome, rheumatoid arthritis, rhinitis (including allergic rhinitis), rosacea, salpingitis, scleroderma, septic shock, sinusitis, Sjigren's syndrome, skin sunburn, skin sunburn, Still's disease, stomatitis, synovitis, Takayasu's arteritis, temporal arteritis, tendonitis, tissue graft rejection, tonsillitis, urethritis, urticaria, uveitis, uvitis, vaginitis, vasculitis (including antineutrophil cytoplasmic antibodies-associated vasculitis and immune complex mediated vasculitis), vulvitis, vulvodynia, warm autoimmune hemolytic anemia, and Wegener's granulomatosis.
Combination Formulations and Uses Thereof
The compounds of the invention can be combined with one or more therapeutic agents. In particular, the therapeutic agent can be one that treats or prophylactically treats any disorder described herein, such as a B-cell related disorder, cancer, or an inflammatory or autoimmune disorder.
Combination Formulations
In addition to the formulations described herein, one or more compounds of the invention can be used in combination with other therapeutic agents. For example, one or more compounds of the invention can be combined with another therapeutic agent. Exemplary therapeutic agent useful for this purpose include, without limitation, those described in U.S. Pat. Nos. 8,008,309; 7,943,618; 7,884,108; 7,868,018; 7,825,118; 7,642,255; 7,501,410; 7,405,295; 6,753,348; and 6,303,652.
In particular embodiments, the compound of the invention is used in combination with an anti-cancer agent or an anti-inflammatory agent (e.g., a nonsteroidal anti-inflammatory drug, acetaminophen, a gold complex, a corticosteroid, or an immunosuppressant).
Non-limiting, exemplary anti-cancer agents include fludarabine, cyclophosphamide, methotrexate, rituximab, bendamustine, ofatumumab, dasatinib, U0126 ((2Z,3Z)-2,3-bis[amino-(2-aminophenyl)sulfanylmethylidene]butanedinitrile), PD98059 (2-(2-amino-3-methoxyphenyl)chromen-4-one), PD184352 (2-(2-chloro-4-iodoanilino)-N-(cyclopropylmethoxy)-3,4-difluorobenzamide), PD0325901 (N-[(2R)-2,3-dihydroxypropoxy]-3,4-difluoro-2-[(2-fluoro-4-iodophenyl)amino]-benzamide), ARRY-142886 (6-(4-bromo-2-chloroanilino)-7-fluoro-N-(2-hydroxyethoxy)-3-methylbenzimidazole-5-carboxamide), SB 239063 (trans-4-[4-(4-fluorophenyl)-5-(2-methoxy-4-pyrimidinyl)-1H-imidazol-1-yl]cyclohexanol), SP 600125 (anthra[1-9-cd]pyrazol-6(2H)-one), BAY 43-9006 (sorafenib or 4-[4-[[4-chloro-3(trifluoromethyl)phenyl]carbamoylamino]phenoxy]-N-methylpyridine-2-carboxamide), wortmannin, or LY 294002 (2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one or a hydrochloride salt thereof). Additional non-limiting, exemplary classes of anti-cancer agents include other kinase inhibitors (e.g., a BTK inhibitor, e.g., PCI-32765 (1-[(3R)-3-[4-amino-3-(4-phenoxyphenyl)pyrazolo[3,4-d]pyrimidin-1-yl]piperidin-1-yl]prop-2-en-1-one), LCB 03-0110 ((3-(2-(3-(morpholinomethyl)phenyl)thieno[3,2-b]pyridin-7-ylamino)phenol), (−)-terreic acid ((1R,6S)-3-hydroxy-4-methyl-7-oxabicyclo[4.1.0]hept-3-ene-2,5-dione), LFM-A13 (2-cyano-N-(2,5-dibromophenyl)-3-hydroxy-2-butenamide), staurosporine, and dasatinib), topoisomerase I inhibitors (e.g., camptothecin and topotecan), topoisomerase II inhibitors (e.g., daunomycin and etoposide), alkylating agents (e.g., cyclophosphamide, melphalan, and carmustine (BCNU)), and anti-tubulin agents (e.g., taxol and vinblastine).
Non-limiting, exemplary anti-inflammatory agents include a nonsteroidal anti-inflammatory drug (an NSAID, e.g., non-specific and COX-2 specific cyclooxgenase enzyme inhibitors), acetaminophen, a gold complex, a corticosteroid, and an immunosuppressant. Non-limiting examples of NSAIDs include acemetacin, aspirin, celecoxib, deracoxib, diclofenac, diflunisal, ethenzamide, etodolac, etofenamate, etoricoxib, fenoprofen, flufenamic acid, flurbiprofen, hydroxychloroquine, ibuprofen, indomethacin, isoxicam, kebuzone, ketoprofen, ketorolac, lonazolac, lornoxicam, lumiracoxib, meclofenamic acid, mefenamic acid, meloxicam, metamizol, misoprostol, mofebutazone, naproxen, nabumetone, niflumic acid, piroxicam, oxaprozinpiroxicam, oxyphenbutazone, parecoxib, phenidone, phenylbutazone, piroxicam, propacetamol, propyphenazone, rofecoxib, salicylamide, salsalate, sulfasalazine, sulindac, suprofen, tiaprofenic acid, tenoxicam, tolmetin, valdecoxib, 4-(4-cyclohexyl-2-methyloxazol-5-yl)-2-fluorobenzenesulfonamide, N-[2-(cyclohexyloxy)-4-nitrophenyl]methanesulfonamide, 2-(3,4-difluorophenyl)-4-(3-hydroxy-3-methylbutoxy)-5-[4-(methylsulfonyl)phenyl]-3 (2H)-pyridazinone, and 2-(3,5-difluorophenyl)-3-[4-(methylsulfonyl)phenyl]-2-cyclopenten-1-one. Non-limiting examples of gold complexes include aurothioglucose, auranofin disodium aurothiomalate, sodium aurothiomalate, and sodium aurothiosulfate. Non-limiting examples of corticosteroids include cortisone, dexamethasone, methylprednisolone, prednisolone, prednisolone sodium phosphate, and prednisone. Non-limiting examples of immunosuppressants include alkylation agents (e.g., cyclophosphamide), antimetabolites (e.g., azathioprine, methotrexate, leflunomide, and mycophenolate mofetil), antibodies or antibody fragments or derivatives (e.g., an anti-C5 monoclonal antibody, such as eculizumab or pexelizumab; and a TNF antagonist, such as entanercept or infliximab, or fragments or derivatives of any of these), and macrolides (e.g., cyclosporine and tacrolimus).
Combination Therapies
A compound of the invention can be used alone or in combination with other agents that have BTK-inhibiting activity, or in combination with other types of treatment (which may or may not inhibit BTK) to treat, prevent, and/or reduce the risk of cancer, an inflammatory disorder, or other disorders that benefit from BTK inhibition. In combination treatments, the dosages of one or more of the therapeutic compounds may be reduced from standard dosages when administered alone. For example, doses may be determined empirically from drug combinations and permutations or may be deduced by isobolographic analysis (e.g., Black et al., Neurology 65:S3-S6, 2005). In this case, dosages of the compounds when combined should provide a therapeutic effect.
Pharmaceutical Compositions
The compounds of the invention are preferably formulated into pharmaceutical compositions for administration to human subjects in a biologically compatible form suitable for administration in vivo. Accordingly, in another aspect, the present invention provides a pharmaceutical composition comprising a compound of the invention in admixture with a suitable diluent, carrier, or excipient.
The compounds of the invention may be used in the form of the free base, in the form of salts, solvates, and as prodrugs. All forms are within the scope of the invention. In accordance with the methods of the invention, the described compounds or salts, solvates, or prodrugs thereof may be administered to a patient in a variety of forms depending on the selected route of administration, as will be understood by those skilled in the art. The compounds of the invention may be administered, for example, by oral, parenteral, buccal, sublingual, nasal, rectal, patch, pump, or transdermal administration and the pharmaceutical compositions formulated accordingly. Parenteral administration includes intravenous, intraperitoneal, subcutaneous, intramuscular, transepithelial, nasal, intrapulmonary, intrathecal, rectal, and topical modes of administration. Parenteral administration may be by continuous infusion over a selected period of time.
A compound of the invention may be orally administered, for example, with an inert diluent or with an assimilable edible carrier, or it may be enclosed in hard or soft shell gelatin capsules, or it may be compressed into tablets, or it may be incorporated directly with the food of the diet. For oral therapeutic administration, a compound of the invention may be incorporated with an excipient and used in the form of ingestible tablets, buccal tablets, troches, capsules, elixirs, suspensions, syrups, wafers, and the like.
A compound of the invention may also be administered parenterally. Solutions of a compound of the invention can be prepared in water suitably mixed with a surfactant, such as hydroxypropylcellulose. Dispersions can also be prepared in glycerol, liquid polyethylene glycols, DMSO and mixtures thereof with or without alcohol, and in oils. Under ordinary conditions of storage and use, these preparations may contain a preservative to prevent the growth of microorganisms. Conventional procedures and ingredients for the selection and preparation of suitable formulations are described, for example, in Remington's Pharmaceutical Sciences (2003, 20th ed.) and in The United States Pharmacopeia: The National Formulary (USP 24 NF19), published in 1999.
The pharmaceutical forms suitable for injectable use include sterile aqueous solutions or dispersions and sterile powders for the extemporaneous preparation of sterile injectable solutions or dispersions. In all cases the form must be sterile and must be fluid to the extent that may be easily administered via syringe.
Compositions for nasal administration may conveniently be formulated as aerosols, drops, gels, and powders. Aerosol formulations typically include a solution or fine suspension of the active substance in a physiologically acceptable aqueous or non-aqueous solvent and are usually presented in single or multidose quantities in sterile form in a sealed container, which can take the form of a cartridge or refill for use with an atomizing device. Alternatively, the sealed container may be a unitary dispensing device, such as a single dose nasal inhaler or an aerosol dispenser fitted with a metering valve which is intended for disposal after use. Where the dosage form comprises an aerosol dispenser, it will contain a propellant, which can be a compressed gas, such as compressed air or an organic propellant, such as fluorochlorohydrocarbon. The aerosol dosage forms can also take the form of a pump-atomizer.
Compositions suitable for buccal or sublingual administration include tablets, lozenges, and pastilles, where the active ingredient is formulated with a carrier, such as sugar, acacia, tragacanth, gelatin, and glycerine. Compositions for rectal administration are conveniently in the form of suppositories containing a conventional suppository base, such as cocoa butter.
The compounds of the invention may be administered to an animal, e.g., a human, alone or in combination with pharmaceutically acceptable carriers, as noted herein, the proportion of which is determined by the solubility and chemical nature of the compound, chosen route of administration, and standard pharmaceutical practice.
Dosages
The dosage of the compounds of the invention, and/or compositions comprising a compound of the invention, can vary depending on many factors, such as the pharmacodynamic properties of the compound; the mode of administration; the age, health, and weight of the recipient; the nature and extent of the symptoms; the frequency of the treatment, and the type of concurrent treatment, if any; and the clearance rate of the compound in the animal to be treated. One of skill in the art can determine the appropriate dosage based on the above factors. The compounds of the invention may be administered initially in a suitable dosage that may be adjusted as required, depending on the clinical response. In general, satisfactory results may be obtained when the compounds of the invention are administered to a human at a daily dosage of, for example, between 0.05 mg and 3000 mg (measured as the solid form). Dose ranges include, for example, between 10-1000 mg (e.g., 50-800 mg). In some embodiments, 50, 100, 150, 200, 250, 300, 350, 400, 450, 500, 550, 600, 650, 700, 750, 800, 850, 900, 950, or 1000 mg of the compound is administered. Preferred dose ranges include, for example, between 0.05-15 mg/kg or between 0.5-15 mg/kg.
Alternatively, the dosage amount can be calculated using the body weight of the patient. For example, the dose of a compound, or pharmaceutical composition thereof, administered to a patient may range from 0.1-50 mg/kg (e.g., 0.25-25 mg/kg). In exemplary, non-limiting embodiments, the dose may range from 0.5-5.0 mg/kg (e.g., 0.5, 1.0, 1.5, 2.0, 2.5, 3.0, 3.5, 4.0, 4.5, or 5.0 mg/kg) or from 5.0-20 mg/kg (e.g., 5.5, 6.0, 6.5, 7.0, 7.5, 8.0, 8.5, 9.0, 9.5, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, or 20 mg/kg).
Diagnostic and Screening Assays
In addition to the above-mentioned therapeutic uses, a compound of the invention can also be used in diagnostic assays, screening assays, and as a research tool.
In diagnostic assays, a compound of the invention may be useful in identifying or detecting BTK activity.
In screening assays, a compound of the invention may be used to identify other compounds that inhibit BTK, for example, as first generation drugs. As research tools, the compounds of the invention may be used in enzyme assays and assays to study the extent of BTK activity. Such information may be useful, for example, for diagnosing or monitoring disease states or progression. In such assays, a compound of the invention may also be radiolabeled.
BTK In Vitro Inhibition Assays
The compounds of the present invention have been found to exhibit BTK inhibition. Compounds may be examined for their efficacy in inhibiting kinase activity by a person skilled in the art, for example, by using the methods described in Example 1 and the other examples provided herein or by methods known in the literature (e.g., Mast Cells: Methods and Protocols (eds. G. Krishnaswamy and D.S. Chi), Methods in Molecular Biology, Series 315, Humana Press, pp. 175-192, 2006).
Inhibitory activity can be determined by any useful method. For example, inhibition can be determined by the effect of a test compound on BTK autophosphorylation. Btk and varying concentrations of the test compound can be included in a [γ-32P]ATP-containing kinase buffer. Autophosphorylation can be analyzed by SDS/PAGE followed by electroblotting and autoradiography, where phosphorylated protein bands can be quantified by densitometry. These assays can be conducted without or with an exogenous substrate (e.g., glutathione S-transferase (GST)-IGα).
In another example, inhibitory activity can be determined by the effect of a test compound on BTK binding. For example, BTK can bind to protein kinase C (PKC) in vivo, where PKC in turn phosphorylates BTK. Accordingly, an exemplary assay to assess BTK-PKC binding includes incubating PKC or cell lysates having PKC (e.g., lysates from human mast cell lines) with glutathione S-transferase (GST)-Btk beads in the absence or presence of the test compound. Then, the extent of Btk-bound PKC can be detected by any useful manner, such as by SDS/PAGE followed by immunoblotting with anti-PKC (MC5) and/or anti-BTK antibodies.
Further examples include use of cellular assays, such as by determining the effect of a test compound on cellular activation. For example, stimulated lymphoid, myeloid, or mast cells (e.g., cells stimulated with a signaling molecule, such as erythropoietin or an antigen, such as IgE) can be incubated with a test compound, and the activation of particular compounds or proteins can be measured. Exemplary compounds and proteins include histamine, leukotriene, cytokines, PKC, Janus tyrosine kinase 2 (Jak2), erythropoietin receptor (EpoR), Stat5, protein kinase B (PKB), and/or mitogen activating protein kinase (Erk1/2). In another example, as activated Btk can be phosphorylated at tyrosine 223 (Y223) and/or tyrosine 551 (Y551), cellular assays can be conducted by staining P-Y223 or P-Y551-positive cells in a population of cells (e.g., by phosphorylation-specific immunochemical staining followed by FACS analysis).
As BTK is a tyrosine kinase, additional useful assays include any tyrosine kinase assay. In particular, commercially available assays include kinase assays that detect formation of ADP, e.g., with luminescent detection, such as in an ADP-GloTM Kinase Assay (Promega Corp., Madison, Wis.).
Dose response curves can be obtained by incubating BTK with a substrate (e.g., ATP or a binding partner, such as PKC) and increasing (e.g., logarithmically increasing) the concentration of a test compound. In addition, a detectable agent (e.g., a luminescent probe, such as a luciferase/luciferin reaction that measures ATP) can be used to correlate kinase activity (e.g., ATP-to-ADP conversion) with the concentration of the test compound. These data can be used to construct a dose response curve, where IC50 is the concentration of the test compound that provides about 50% inhibition.
The following non-limiting examples are illustrative of the present invention.
EXAMPLES
Example 1
BTK Assay
The compounds were assayed for BTK inhibition activity using the InvitrogenTM LanthaScreen® Kinase Binding Assay. In short, the compounds were tested for their ability to displace a tracer (in this case InvitrogenTM Kinase Tracer 236) from the active site of BTK. The BTK protein used in the assay was labeled with europium (Eu), and so displacement was conveniently detected as a loss of Eu-to-tracer FRET (fluorescence resonance energy transfer) signal using a plate reader equipped to measure TR-FRET (time resolved FRET). This displacement assay is commonly used to characterize kinase inhibitors and it is predictive of kinase inhibitory activity.
Several of the compounds were also tested directly for kinase inhibitory activity using the InvitrogenTM Omnia® assay. The Omnia® assay is a real time kinetic assay that uses a phosphate-induced fluorophore to detect transfer of phosphate from ATP to a peptide. Inhibition of kinase activity in this assay reduces the rate of fluorescence increase. Compounds tested in both assays demonstrated similar IC50 values. More details and experimental protocols for both assays can be found at invitrogen.com.
Determination of ICso Values
Various compounds of the invention (i.e., compounds of formula (I) or (Ia)) were assayed for BTK inhibition activity, as described above, and possessed IC50 values less than 1.0 μM. In some embodiments, the compounds possessed IC50 values less than 0.9 μM, less than 0.8 μM, less than 0.5 μM, less than 0.3 μM, less than 0.2 μM, less than 0.1 μM, less than 0.09 μM, less than 0.08 μM, less than 0.05 μM, less than 0.04 μM, less than 0.03 μM, less than 0.025 μM, less than 0.015 μM, less than 0.01 μM, less than 0.005 μM, less than 0.002 μM, less than 0.0015 μM, or less than 0.001 μM. In some embodiments, the compounds possessed IC50 values from 0.0001 μM to 0.9 μM (e.g., from 0.0001 μM to 0.8 μM, from 0.0001 μM to 0.5 μM, from 0.0001 μM to 0.3 μM, from 0.0001 μM to 0.2 μM, from 0.0001 μM to 0.1 μM, from 0.0001 μM to 0.09 μM, from 0.0001 μM to 0.08 μM, from 0.0001 μM to 0.05 μM, from 0.0001 μM to 0.04 μM, from 0.0001 μM to 0.03 μM, from 0.0001 μM to 0.025 μM, from 0.0001 μM to 0.015 μM, from 0.0001 μM to 0.01 μM, from 0.0001 μM to 0.005 μM, 0.0002 μM to 0.9 μM, from 0.0002 μM to 0.8 μM, from 0.0002 μM to 0.5 μM, from 0.0002 μM to 0.3 μM, from 0.0002 μM to 0.2 μM, from 0.0002 μM to 0.1 μM, from 0.0002 μM to 0.09 μM, from 0.0002 μM to 0.08 μM, from 0.0002 μM to 0.05 μM, from 0.0002 μM to 0.04 μM, from 0.0002 μM to 0.03 μM, from 0.0002 μM to 0.025 μM, from 0.0002 μM to 0.015 μM, from 0.0002 μM to 0.01 μM, from 0.0002 μM to 0.005 μM, 0.0005 μM to 0.9 μM, from 0.0005 μM to 0.8 μM, from 0.0005 μM to 0.5 μM, from 0.0005 μM to 0.3 μM, from 0.0005 μM to 0.2 μM, from 0.0005 μM to 0.1 μM, from 0.0005 μM to 0.09 μM, from 0.0005 μM to 0.08 μM, from 0.0005 μM to 0.05 μM, from 0.0005 μM to 0.04 μM, from 0.0005 μM to 0.03 μM, from 0.0005 μM to 0.025 μM, from 0.0005 μM to 0.015 μM, from 0.0005 μM to 0.01 μM, from 0.0005 μM to 0.005 μM, from 0.0005 μM to 0.002 μM, from 0.0005 μM to 0.0015 μM, or from 0.0005 μM to 0.001 μM).
Example 2
Synthesis of (R)-2-(3-((benzo[c][1,2,5]thiadiazol-5-ylamino)methyl)furan-2-carbonyl)-N-methyl-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxamide (Compound 1)







Synthesis of 2-(furan-3-yl)-1,3-dioxolane (2-A)
To a solution of furan-3-carbaldehyde (SM1-A, 2 g, 20 mmol) and ethane-1,2-diol (3.72 g, 60 mmol) in toluene (100 ml) was added pyridinium p-toluenesulfonate (PPTS, 50 mg, 0.2 mmol), and the solution was heated at reflux utilizing a Dean-Stark trap. After the theoretical amount of water was collected, the solvent was evaporated, and the residue was purified by column chromatography (petroleum ether:ethyl acetate=20:1) to give product (2-A) (1.8 g, 80%) as a colorless oil. 1H NMR (300 MHz, CDCl3): δ 7.54 (s, 1H), 7.41-7.40 (t, 1H), 6.47-6.46 (d, 1H), 5.85 (s, 1H), 4.09-4.06 (m, 2H), 4.00-3.98 (m, 2H).
Synthesis of 3-(1,3-dioxolan-2-yl)furan-2-carboxylic acid (3-A)
To a solution of product (2-A) (500 mg, 3.6 mmol) in THF (10 ml) was added drop-wise n-BuLi (1.5 mL, 3.51 mmol) at −78° C. under N2. The solution was stirred at −78° C. for 30 minutes (min), and then CO2 gas was bubbled into the solution below −60° C. for 30 min. The suspension was stirred at −78° C. for 30 min and quenched by saturated NH4Cl (10 mL). The reaction mixture was warmed to room temperature (rt) and extracted with ethyl acetate (EA, 20 mL×3). The combined organic layers were washed with brine (20 mL×2), dried over Na2SO4, and concentrated to give crude product (3-A) (300 mg, 45%) as a yellow solid. 1H NMR (300 MHz, CDCl3): δ 7.58-7.57 (d, 1H), 6.89-6.88 (d, 1H), 6.34 (s, 1H), 4.15-4.13 (m, 2H), 4.08-4.05 (m, 2H).
Synthesis of (R)-tert-butyl 3-(methylcarbamoyl)-3,4-dihydro-1H-pyrido[3,4-b]indole-2(9H)-carboxylate (4-A)
To a solution of (R)-2-(tert-butoxycarbonyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxylic acid (SM2-A, 10 g, 32 mmol) in dimethylformamide (DMF, 100 ml) was added 2-(7-aza-1H-benzotriazole-1-yl)-1,1,3,3-tetramethyluronium hexafluorophosphate (HATU, 15.5 g, 42 mmol), followed by diisopropylethylamine (DIEA, 12.4 g, 96 mmol) while the temperature was maintained below 0° C. After stirring at this temperature for 2 hours (h), methylamine (32 mL, 63 mmol, 2 M in THF) was added. The reaction mixture was warmed to rt and stirred at rt for 16 h. The solution was diluted with ethyl acetate (500 mL); washed with water (200 mL), 0.1 M of hydrochloride (100 mL), saturated NaHCO3 (100 mL), and then brine (100 mL); dried over Na2SO4; and concentrated and purified by column chromatograph (CC, dichloromethane (DCM): MeOH=200:1) to give product (4-A) (10 g, 96%) as a white solid. LC-MS (M+H)+=330.
Synthesis of (R)—N-methyl-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxamide hydrochloride (5-A)
Hydrochloride gas was bubbled into a solution of product (4-A) (5 g, 15 mmol) in THF (100 mL) at rt for 6 h. The solvent was evaporated to give product (5-A) (3.5 g, 87%) as a brown solid. 1H NMR (300 MHz, CD3OD): δ 7.54-7.51 (d, 1H), 7.41-7.38 (d, 1H), 7.22-7.17 (t, 1H), 7.13-7.08 (t, 1H), 4.55-4.54 (d, 2H), 4.35-4.30 (dd, 1H), 3.50-3.43 (dd, 1H), 3.18-3.08 (t, 1H), 2.91 (s, 3H). LC-MS (M+H)+=230.
Synthesis of (R)-2-(3-(1,3-dioxolan-2-yl)furan-2-carbonyl)-N-methyl-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxamide (6-A)
To a solution of product (3-A) (2.19 g, 11.9 mmol) in CH3CN (200 ml) was added 4-(4,6-dimethoxy-1,3,5-triazin-2-yl)-4-methylmorpholin-4-ium chloride (DMTMMCl, 4.9 g, 17.8 mmol), and then 4-methylmorpholine (NMM, 4.8 g, 47.6 mmol) was added drop-wise while maintaining the temperature below 20° C. After stirring for 16 h at rt, product (5-A) (3 g, 13.1 mmol) was added, and the solution was stirred at rt for another 6 h. The reaction mixture was diluted with ethyl acetate (200 mL), washed with brine (100 mL), dried over Na2SO4, and concentrated and purified by CC (DCM:MeOH=200:1 to 100:1) to give product (6-A) (2.2 g, 47%) as a brown solid. LC-MS (M+H)+=396.
Synthesis of (R)-2-(3-formylfuran-2-carbonyl)-N-methyl-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxamide (7-A)
To a solution of product (6-A) (2.2 g, 5.56 mmol) in acetone (20 ml) was added TsOH (191 mg, 1.11 mmol), and the solution was stirred at ambient temperature for 3 h. The reaction was quenched by saturated NaHCO3 (20 mL) and extracted with ethyl acetate (50 mL×2). The combined organic layers were washed with brine (50 mL), dried over Na2SO4, and concentrated and purified by CC (DCM:MeOH=300:1 to 100:1) to give product (7-A) (1.8 g, 92%) as a brown solid. LC-MS (M+H)+=352.
Synthesis of (R)-2-(3-((benzo[c][1,2,5]thiadiazol-5-ylamino)methyl)furan-2-carbonyl)-N-methyl-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxamide (Compound 1)
To a solution of product (7-A) (130 mg, 0.37 mmol) and benzo[c][1,2,5]thiadiazol-5-amine (61 mg, 0.41 mmol) in MeOH (10 ml) was added InCl3 (41 mg, 0.18 mmol). After stirring at rt for 2 h, Et3SiH (172 mg, 1.48 mmol) was added, and the reaction was stirred at rt for another 16 h. The reaction mixture was diluted with ethyl acetate (30 mL); washed with saturated NaHCO3 (20 mL) and brine (20 mL); dried over Na2SO4; and concentrated and purified by preparative TLC (Prep-TLC, DCM:MeOH=11:1) to give compound 1 (50 mg, 28%) as a yellow solid. 1H NMR (300 MHz, DMSO): δ 10.57 (s, 1H), 7.81 (s, 1H), 7.73-7.70 (d, 1H), 7.40-7.38 (d, 1H), 7.30-7.27 (d, 2H), 7.15-7.12 (t, 3H), 7.07-7.02 (t, 1H), 6.99-9.95 (t, 1H), 6.67-6.66 (d, 2H), 5.44 (s, 1H), 5.21-5.16 (d, 1H), 4.86-4.83 (d, 1H), 4.51-4.49 (d, 1H), 3.43-3.38 (d, 1H), 3.01-2.95 (dd, 1H), 2.58-2.55 (d, 3H). LC-MS (M+H)+=487. 1H-NMR (in DMSO), LC-MS, MS, and HPLC (column: Waters, 3.5 μm, 4.6×100 mm; mobile phase: H2O (0.05% trifluoroacetic acid, TFA)-acetonitrile (ACN, 0.05% TFA), ACN from 10% to 100% in eight minutes; total flow rate: 1.0 mL/min) spectroscopy experiments were conducted to provide the data in FIGS. 1A-1C and FIGS. 2A-2B for compound 1.
Example 3
Synthesis of (R)—N-methyl-2-(4-((quinoxalin-6-ylamino)methyl)-1H-pyrazole-5-carbonyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxamide (Compound 5)







Synthesis of (R)-tert-butyl 3-(methylcarbamoyl)-3,4-dihydro-1H-pyrido[3,4-b]indole-2(9H)-carboxylate (2-B)
To a solution of (R)-2-(tert-butoxycarbonyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxylic acid (SM1-B, 10 g, 32 mmol) in DMF (100 ml) was added HATU (15.5 g, 42 mmol), followed by DIEA (12.4 g, 96 mmol) while the temperature was maintained below 0° C. After stirring for 2 h at this temperature, methylamine (2M in THF, 32 mL, 63 mmol) was added. The reaction mixture was warmed to rt and stirred for 16 h. The solution was diluted with ethyl acetate (500 mL); washed with water (200 mL), 0.1 M hydrochloride (100 mL), saturated NaHCO3 (100 mL), and brine (100 mL); dried over Na2SO4; and concentrated and purified by column chromatography (DCM:MeOH=200:1) to give product (2-B) (10 g, 96%) as a white solid. LC-MS (M+H)+=330.
Synthesis of (R)—N-methyl-2,3,4,9-tetrahydro-JH-pyrido[3,4-b]indole-3-carboxamide hydrochloride (3-B)
Hydrochloride gas was bubbled into a solution of product (2-B) (5 g, 15 mmol) in THF (100 mL) at rt for 6 h. The solvent was evaporated to give product (3-B) (3.5 g, 87%) as a brown solid. 1H NMR (300 MHz, CD3OD): δ 7.54-7.51 (d, 1H), 7.41-7.38 (d, 1H), 7.22-7.17 (t, 1H), 7.13-7.08 (t, 1H), 4.55-4.54 (d, 2H), 4.35-4.30 (dd, 1H), 3.50-3.43 (dd, 1H), 3.18-3.08 (t, 1H), 2.91 (s, 3H). LC-MS (M+H)+=230.
Synthesis of 4-formyl-1H-pyrazole-5-carboxylic acid (4-B)
To a suspension of ethyl 4-formyl-1H-pyrazole-5-carboxylate (SM2-B, 19 g, 115 mmol) in a solution of MeOH (76 ml) and water (130 mL) was added NaOH (14 g, 345 mmol) in water (130 mL) at 0° C. The reaction mixture was warmed to rt and stirred for 2 h. The solution was adjusted to pH of 1 with concentrated hydrochloride. The solid was collected, washed with water (50 mL), and dried in air to give the product (4-B) (12 g, 75%) as a light yellow solid. 1H NMR (300 MHz, DMSO): δ 8.45 (s, 1H), 10.29 (s, 1H). LC-MS (M+H)+=141.
Synthesis of 4-((quinoxalin-6-ylamino)methyl)-1H-pyrazole-5-carboxylic acid (5-B)
To a suspension of product (4-B) (100 mg, 0.71 mmol) and quinoxalin-6-amine (104 mg, 0.71 mmol) in a solution of 1,2-dichloroethane (DCE, 5 mL) and DMF (5 mL) was added acetic acid (5 drops) at rt. The reaction mixture was then stirred for 16 h. MeOH (5 mL) was added, followed by NaBH4 (100 mg, 2.63 mmol). The reaction mixture was stirred at rt for another 30 min. The solution was diluted with ethyl acetate (30 mL); washed with 5% citric acid (10 mL) and brine (20 mL); dried over Na2SO4; and concentrated to give crude product (5-B) (200 mg, 99%) as a yellow solid. LC-MS (M+H)+=270.
Synthesis of (R)—N-methyl-2-(4-((quinoxalin-6-ylamino)methyl)-1H-pyrazole-5-carbonyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxamide) (compound 5)
To a solution of product (5-B) (200 mg, 0.75 mmol) in CH3CN (20 ml) was added 4-(4,6-dimethoxy-1,3,5-triazin-2-yl)-4-methylmorpholin-4-ium chloride (310 mg, 1.13 mmol) followed by 4-methylmorpholine (300 mg, 3 mmol) at rt. After stirred for 30 min, product (3-B) (200 mg, 0.75 mmol) was added and stirred at rt for 6 h. The solution was diluted with ethyl acetate (30 mL); washed with brine (20 mL); dried over Na2SO4; and concentrated and purified by pre-TLC (DCM:MeOH=10:1) to give compound 5 (13 mg, 4%) as a yellow solid. 1H NMR (300 MHz, DMSO): δ 12.95 (s, 1H), 10.56 (s, 1H), 8.56-8.55 (d, 1H), 8.42-8.41 (d, 1H), 7.78 (s, 1H), 7.70-7.67 (d, 1H), 7.58 (s, 1H), 7.39-7.37 (d, 1H), 7.32-7.27 (m, 2H), 7.06-6.88 (m, 2H), 6.89-6.88 (d, 1H), 6.55-6.51 (t, 1H), 5.72 (s, 1H), 5.44-5.38 (d, 1H), 4.64 (s, 1H), 4.45-4.44 (d, 1H), 3.39-3.34 (d, 1H), 2.56-2.55 (d, 3H). LC-MS (M+H)+=481. 1H-NMR (in DMSO), LC-MS, MS, and HPLC (column: MP C18, 3.0 μm, 4.6×100 mm; mobile phase: H2O (0.05% TFA)-CAN (0.05% TFA), ACN from 10% to 100% in eight minutes; total flow rate: 1.0 mL/min) spectroscopy experiments were conducted to provide the data in FIGS. 3A-3C and FIGS. 4A-4B for compound 5.
Other Embodiments
While the present invention has been described with reference to what are presently considered to be the preferred examples, it is to be understood that the invention is not limited to the disclosed examples. To the contrary, the invention is intended to cover various modifications and equivalent arrangements included within the spirit and scope of the appended claims.
All publications, patents and patent applications are herein incorporated by reference in their entirety to the same extent as if each individual publication, patent or patent application was specifically and individually indicated to be incorporated by reference in its entirety. Where a term in the present application is found to be defined differently in a document incorporated herein by reference, the definition provided herein is to serve as the definition for the term.
Other embodiments are in the claims.

## Claims

1. A compound having the formula:




or a stereoisomer, pharmaceutically acceptable salt,
wherein
each R1, R2, R3, and R4 is, independently, CR5, wherein each R5 is, independently, H or halo;
A is H, optionally substituted C1-12 heterocyclyl, or —C(O)—NRA1RA2, wherein each RA1 and RA2 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, or optionally substituted C1-6 alkoxy-C1-6 alkyl, or wherein the combination of RA1 and RA2 can together form optionally substituted C1-12 heterocyclyl;
X has the formula:




wherein each of Xa, Xb, and Xc is, independently, selected from O, S, NRx1, N, or CRx2;
Rx1 is H or optionally substituted C1-6 alkyl; and
RX2 is H, halo, or optionally substituted C1-6 alkyl;
L is —CH2—NZN1—or —CH2—O—, wherein each ZN1 is, independently, H, optionally substituted C1-6 alkyl, optionally substituted C2-6 alkenyl, optionally substituted C2-6 alkynyl, or an N-protecting group;
each Z3a, and Z3b is, independently, H or C1-6 alkyl;
Z4 is H, optionally substituted C1-6 alkyl, optionally substituted halo-C1-6 alkyl, optionally substituted C1-7 acyl, or an N-protecting group;
each Z5a and Z5b is, independently, H or C1-6 alkyl; and
Y is optionally substituted bicyclic C1-12 heterocyclyl.

2. The compound of claim 1, wherein
each R1, R2, R3, and R4 is, independently, CR5, wherein each R5 is H;
A is H, or —C(O)—NRA1 RA2, wherein each RA1 and RA2 is, independently, H, optionally substituted C1-6 alkyl, or optionally substituted C1-6 alkoxy-C1-6 alkyl; and
each Z3a, Z3b, and Z4 is, independently, H or C1-6 alkyl.

3. The compound of claim 1, wherein said compound has the formula:




or a pharmaceutically acceptable salt, wherein Z3a is H or C1-6 alkyl.

4. The compound of claim 1, wherein said compound has the formula:




or a pharmaceutically acceptable salt, wherein Z3a is H or C1-6 alkyl.

5. The compound of claim 1, wherein said compound has the formula:




or a stereoisomer, pharmaceutically acceptable salt, wherein Z3a is H or optionally substituted C1-6 alkyl.

6. The compound of claim 1, wherein said compound has the formula:




or a stereoisomer, pharmaceutically acceptable salt, wherein Z3a is H or C1-6 alkyl.

7. The compound of claim 1, wherein Y has the formula:




and wherein the combination of Ya and Yb or the combination of Yb and Yccan together form optionally substituted C1-12 heterocyclyl.

8. The compound of claim 7, wherein Y is optionally substituted C1-12heteroaryl.

9. The compound of claim 8, wherein Y is selected from the group consisting of optionally substituted quinoxalinyl, optionally substituted dihydroquinoxalinyl, optionally substituted quinazolinyl, optionally substituted cinnolinyl, optionally substituted phthalazinyl, optionally substituted quinolyl, optionally substituted isoquinolyl, optionally substituted dihydroquinolyl, optionally substituted tetrahydroquinolyl, optionally substituted dihydroisoquinolyl, optionally substituted tetrahydroisoquinolyl, optionally substituted benzoxazolyl, optionally substituted benzimidazolyl, optionally substituted benzothiazolyl, optionally substituted benzothiadiazolyl, optionally substituted indolyl, optionally substituted dihydroindolyl, optionally substituted indazolyl, optionally substituted benzofuranyl, optionally substituted isobenzofuranyl, and optionally substituted benzothienyl.

10. The compound of claim 9, wherein Y is optionally substituted optionally substituted dihydroquinoxalinyl, optionally substituted dihydroquinolyl, optionally substituted tetrahydroquinolyl, optionally substituted dihydroisoquinolyl, optionally substituted tetrahydroisoquinolyl, or optionally substituted dihydroindolyl comprising oxo.

11. The compound of claim 1, wherein X is selected from the group consisting of optionally substituted furyl, optionally substituted pyrazolyl, optionally substituted thiazolyl, optionally substituted pyrrolyl, optionally substituted oxadiazolyl, optionally substituted isoxazolyl, optionally substituted oxazolyl, optionally substituted imidazolyl, optionally substituted thienyl, optionally substituted isothiazolyl, and optionally substituted thiadiazolyl.

12. The compound of claim 1, wherein A is H, optionally substituted C1-12heteroaryl, or —C(O)—NRA1RA2, wherein each RA1 and RA2 is, independently, H, optionally substituted C1-6 alkyl, or optionally substituted C1-6 alkoxy-C1-6 alkyl.

13. The compound of claim 1, wherein each of Z1, Z2, Z3a, and Z3b, if present, is, independently, H or methyl.

14. The compound of claim 1, wherein both R1 and R4 are CH.

15. The compound of claim 1, wherein said compound has the formula:




or a stereoisomer, pharmaceutically acceptable salt,
wherein
each R2′, R3′, and R4′is, independently, H or halo;
each of Xa, Xb, and Xc is, independently, selected from O, S, NRx1 , N, or CRX2, wherein RX1 is H or optionally substituted C1-6 alkyl, and RX2 is H, halo, or optionally substituted C1-6 alkyl; and
the combination of Ya and Yb or the combination of Yb and Yc together form optionally substituted C1-12heterocyclyl.

16. The compound of claim 1, wherein said compound has the formula:




or a stereoisomer, pharmaceutically acceptable salt,
wherein
each R2′, R3′, and R4′is, independently, H or halo;
each of Xa, Xb, and Xc is, independently, selected from O, S, NRx1, N, or CRX2, wherein RX1 is H or optionally substituted C1-6 alkyl, and RX2 is H, halo, or optionally substituted C1-6 alkyl; and
the combination of Ya and Yb or the combination of Yb and Yc together form optionally substituted C1-12heterocyclyl.

17. A compound having the formula:

































or a stereoisomer, pharmaceutically acceptable salt.

18. A pharmaceutical composition comprising the compound of claim 1, or a stereoisomer, pharmaceutically acceptable salt, and a pharmaceutically acceptable excipient.