LiteFold/GO huggingface dataset:
obsolete intrinsic component of chloroplast inner membrane (GO:0031356)
Namespace: cellular_component
Definition: OBSOLETE. The component of the chloroplast inner membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic to chloroplast inner membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete integral component of chloroplast inner membrane (GO:0031357)
Namespace: cellular_component
Definition: OBSOLETE. The component of the chloroplast inner membrane consisting of the gene products having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
Synonyms: integral to chloroplast inner membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete integral component of chloroplast outer membrane (GO:0031359)
Namespace: cellular_component
Definition: OBSOLETE. The component of the chloroplast outer membrane consisting of the gene products having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
Synonyms: integral to chloroplast outer membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete intrinsic component of thylakoid membrane (GO:0031360)
Namespace: cellular_component
Definition: OBSOLETE. The component of the thylakoid membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic to thylakoid membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete integral component of thylakoid membrane (GO:0031361)
Namespace: cellular_component
Definition: OBSOLETE. The component of the thylakoid membrane consisting of the gene products having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
Synonyms: integral to thylakoid membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete anchored component of external side of plasma membrane (GO:0031362)
Namespace: cellular_component
Definition: OBSOLETE. The component of the plasma membrane consisting of the gene products that are tethered to the external side of the membrane only by a covalently attached anchor, such as a lipid group embedded in the membrane. Gene products with peptide sequences that are embedded in the membrane are excluded from this grouping.
Synonyms: anchored to external leaflet of plasma membrane; anchored to external side of plasma membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
N-terminal protein amino acid deamination (GO:0031363)
Namespace: biological_process
Definition: The removal of an amino group from the N-terminal amino acid residue of a protein.
N-terminal protein amino acid deamination, from side chain (GO:0031364)
Namespace: biological_process
Definition: The removal of an amino group from the side chain of an N-terminal asparagine or glutamine residue of a protein.
N-terminal protein amino acid modification (GO:0031365)
Namespace: biological_process
Definition: The alteration of the N-terminal amino acid residue in a protein.
Synonyms: peptide or protein amino-terminal blocking; peptide/protein amino-terminal blocking
obsolete N-terminal peptidyl-asparagine deamination (GO:0031366)
Namespace: biological_process
Definition: OBSOLETE. The removal of an amino group from the side chain of an N-terminal asparagine residue of a protein.
Comment: This term was obsoleted because it represents a molecular function.
obsolete N-terminal peptidyl-glutamine deamination (GO:0031367)
Namespace: biological_process
Definition: OBSOLETE. The removal of an amino group from the side chain of an N-terminal glutamine residue of a protein.
Comment: This term was obsoleted because it represents a molecular function.
obsolete Pro-X metallocarboxypeptidase activity (GO:0031368)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the cleavage of a Pro-Xaa bond by a metallopeptidase mechanism to release a C-terminal amino acid.
Synonyms: Pro-X metallocarboxypeptidase activity
Comment: This term was made obsolete because it represents a gene product.
translation initiation factor binding (GO:0031369)
Namespace: molecular_function
Definition: Binding to a translation initiation factor, any polypeptide factor involved in the initiation of ribosome-mediated translation.
eukaryotic initiation factor 4G binding (GO:0031370)
Namespace: molecular_function
Definition: Binding to eukaryotic initiation factor 4G, a polypeptide factor involved in the initiation of ribosome-mediated translation.
Synonyms: eIF4G binding
ubiquitin conjugating enzyme complex (GO:0031371)
Namespace: cellular_component
Definition: Any complex that possesses ubiquitin conjugating enzyme activity.
Synonyms: E2 complex
UBC13-MMS2 complex (GO:0031372)
Namespace: cellular_component
Definition: A heterodimeric ubiquitin conjugating enzyme complex that catalyzes assembly of K63-linked polyubiquitin chains. In Saccharomyces cerevisiae, the complex comprises Ubc13p and Mms2p; in human it comprises UBE2N and UBE2V1/UBE2V2; and in plants UBC35/UBC36 and UEV1A/UEV1B/UEV1C/UEV1D-4.
Synonyms: BEN-UEV1A complex; ubc-13-uev-1 complex; UBE2N/UBE2NL complex; UBE2V1/UBE2V2 complex; Uev1A-ben complex
obsolete type II fatty acid synthase complex (GO:0031375)
Namespace: cellular_component
Definition: OBSOLETE. A fatty acid synthase complex in which each polypeptide chain catalyzes a single activity.
Synonyms: type II FAS; type II FAS complex; type II fatty acid synthase; type II fatty acid synthase complex
Comment: Type II refers to the type of fatty acid synthase. Type I is in a complex, type II is not.
obsolete cytosolic type II fatty acid synthase complex (GO:0031376)
Namespace: cellular_component
Definition: OBSOLETE. A fatty acid synthase complex in which each polypeptide chain catalyzes a single activity, located in the cytosol.
Synonyms: cytosolic type II FAS complex; cytosolic type II fatty acid synthase complex
obsolete mitochondrial type II fatty acid synthase complex (GO:0031377)
Namespace: cellular_component
Definition: OBSOLETE. A fatty acid synthase complex in which each polypeptide chain catalyzes a single activity, located in the mitochondrion.
Synonyms: mitochondrial type II FAS complex; mitochondrial type II fatty acid synthase complex
Comment: Obsoleted because type II fatty acid synthases are not complexes
obsolete plastid type II fatty acid synthase complex (GO:0031378)
Namespace: cellular_component
Definition: OBSOLETE. A fatty acid synthase complex in which each polypeptide chain catalyzes a single activity, located in a plastid.
Synonyms: plastid type II FAS complex; plastid type II fatty acid synthase complex
Comment: Obsoleted because type II fatty acid synthase is not a complex.
RNA-directed RNA polymerase complex (GO:0031379)
Namespace: cellular_component
Definition: A protein complex that possesses RNA-directed RNA polymerase activity.
viral RNA-directed RNA polymerase complex (GO:0031381)
Namespace: cellular_component
Definition: A virus-specific protein complex that possesses RNA-dependent RNA polymerase activity and replicates the genome of an RNA virus.
mating projection formation (GO:0031382)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a cell projection in response to mating pheromone. This process is observed in unicellular fungi.
Synonyms: mating projection assembly; mating projection biogenesis; shmooing
regulation of mating projection assembly (GO:0031383)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate, or extent of mating projection formation by unicellular fungi.
Synonyms: regulation of mating projection biogenesis
regulation of termination of mating projection growth (GO:0031385)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate, or extent of the end of mating projection formation by unicellular fungi.
protein tag activity (GO:0031386)
Namespace: molecular_function
Definition: A molecular function exhibited by a protein that is covalently attached (AKA tagged or conjugated) to another protein where it acts as a marker, recognized by the cellular apparatus to target the tagged protein for some cellular process such as modification, sequestration, transport or degradation.
Synonyms: covalent modifier; protein tag; protein tagging activity; ubiquitin; ubiquitin-like protein modifier
Comment: Use this term to annotate conjugated tags, not for conjugating enzymes. At the time of writing, all known gene products with this activity are ubiquitin-like, either based on overall sequence similarity or the presence of common motifs and structures.
MPF complex (GO:0031387)
Namespace: cellular_component
Definition: A complex consisting of a Cdc2-class (also known as Cdc28) cyclin-dependent kinase and an M-phase cyclin such as S. pombe Cdc13. The MPF complex phosphorylates and activates the anaphase promoting complex (APC).
organic acid phosphorylation (GO:0031388)
Namespace: biological_process
Definition: The process of introducing one or more phosphate groups into an organic acid.
Rad17 RFC-like complex (GO:0031389)
Namespace: cellular_component
Definition: A pentameric protein complex related to replication factor C, which loads a trimeric complex of checkpoint proteins (known as the checkpoint clamp or 9-1-1 complex) onto DNA at damage sites; functions in DNA damage cell cycle checkpoints. In Schizosaccharomyces pombe the subunits are known as Rad17, Rfc2, Rfc3, Rfc4, and Rfc5, while in Saccharomyces cerevisiae the subunits are known as Rad24p, Rfc2p, Rfc3p, Rfc4p, and Rfc5p.
Synonyms: Rad17-RFC; Rad17-RLC; Rad24p RFC-like complex; RFC (Rad17)
Ctf18 RFC-like complex (GO:0031390)
Namespace: cellular_component
Definition: A heptameric complex related to replication factor C, which loads the DNA polymerase processivity factor proliferating cell nuclear antigen (PCNA) onto DNA and plays a vital role in chromosome cohesion. In Saccharomyces the subunits are known as Ctf18p, Rfc2p, Rfc3p, Rfc4p, Rfc5p, Dcc1p, and Ctf8p.
Synonyms: Ctf18-RFC; Ctf18-RLC; RFC (Ctf18)
regulation of prostaglandin biosynthetic process (GO:0031392)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of prostaglandin.
Synonyms: regulation of prostaglandin anabolism; regulation of prostaglandin biosynthesis; regulation of prostaglandin formation; regulation of prostaglandin synthesis
negative regulation of prostaglandin biosynthetic process (GO:0031393)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of prostaglandin.
Synonyms: down regulation of prostaglandin biosynthetic process; down-regulation of prostaglandin biosynthetic process; downregulation of prostaglandin biosynthetic process; inhibition of prostaglandin biosynthetic process; negative regulation of prostaglandin anabolism; negative regulation of prostaglandin biosynthesis; negative regulation of prostaglandin formation; negative regulation of prostaglandin synthesis
positive regulation of prostaglandin biosynthetic process (GO:0031394)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of prostaglandin.
Synonyms: activation of prostaglandin biosynthetic process; positive regulation of prostaglandin anabolism; positive regulation of prostaglandin biosynthesis; positive regulation of prostaglandin formation; positive regulation of prostaglandin synthesis; stimulation of prostaglandin biosynthetic process; up regulation of prostaglandin biosynthetic process; up-regulation of prostaglandin biosynthetic process; upregulation of prostaglandin biosynthetic process
bursicon neuropeptide hormone complex (GO:0031395)
Namespace: cellular_component
Definition: A neuropeptide hormone secreted by the central nervous system of insects that stimulates the tanning and sclerotization of the adult cuticle following eclosion. The active hormone consists of an obligate heterodimer of the alpha and beta subunits.
regulation of protein ubiquitination (GO:0031396)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the addition of ubiquitin groups to a protein.
negative regulation of protein ubiquitination (GO:0031397)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the addition of ubiquitin groups to a protein.
Synonyms: down regulation of protein ubiquitination; down-regulation of protein ubiquitination; downregulation of protein ubiquitination; inhibition of protein ubiquitination
positive regulation of protein ubiquitination (GO:0031398)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of the addition of ubiquitin groups to a protein.
Synonyms: activation of protein ubiquitination; stimulation of protein ubiquitination; up regulation of protein ubiquitination; up-regulation of protein ubiquitination; upregulation of protein ubiquitination
regulation of protein modification process (GO:0031399)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.
negative regulation of protein modification process (GO:0031400)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.
Synonyms: down regulation of protein modification; down-regulation of protein modification; downregulation of protein modification; inhibition of protein modification
positive regulation of protein modification process (GO:0031401)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.
Synonyms: activation of protein modification; stimulation of protein modification; up regulation of protein modification; up-regulation of protein modification; upregulation of protein modification
sodium ion binding (GO:0031402)
Namespace: molecular_function
Definition: Binding to a sodium ion (Na+).
Synonyms: Na+ ion binding
lithium ion binding (GO:0031403)
Namespace: molecular_function
Definition: Binding to a lithium ion (Li+).
Synonyms: Li+ ion binding
chloride ion binding (GO:0031404)
Namespace: molecular_function
Definition: Binding to a chloride ion (Cl-).
Synonyms: chloride binding; Cl- ion binding
lipoic acid binding (GO:0031405)
Namespace: molecular_function
Definition: Binding to lipoic acid, 1,2-dithiolane-3-pentanoic acid.
carboxylic acid binding (GO:0031406)
Namespace: molecular_function
Definition: Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-).
oxylipin metabolic process (GO:0031407)
Namespace: biological_process
Definition: The chemical reactions and pathways involving any oxylipin, any of a group of biologically active compounds formed by oxidative metabolism of polyunsaturated fatty acids.
Synonyms: oxylipin metabolism
pigment binding (GO:0031409)
Namespace: molecular_function
Definition: Binding to a pigment, a general or particular coloring matter in living organisms, e.g. melanin.
cytoplasmic vesicle (GO:0031410)
Namespace: cellular_component
Definition: A vesicle found in the cytoplasm of a cell.
Synonyms: cytoplasmic membrane bounded vesicle; cytoplasmic membrane-enclosed vesicle; cytoplasmic, membrane-bounded vesicle
gas vesicle (GO:0031411)
Namespace: cellular_component
Definition: An intracellular non-membrane-bounded organelle; a hollow structure made of protein, which usually has the form of a cylindrical tube closed by conical end caps. By regulating their relative gas vesicle content, aquatic microbes are able to perform vertical migrations.
Synonyms: gas vacuole
Comment: Note that although this organelle is commonly referred to as a 'vesicle' or 'vacuole' in the literature, it is not surrounded by a membrane.
gas vesicle organization (GO:0031412)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a gas vesicle. A gas vesicle is a hollow structure made of protein, which usually has the form of a cylindrical tube closed by conical end caps.
Synonyms: gas vesicle biosynthesis; gas vesicle formation; gas vesicle organisation; gas vesicle organization and biogenesis
Comment: Note that although gas vesicles are commonly referred to as 'vesicles' or 'vacuoles' in the literature, they are not surrounded by a membrane.
regulation of buoyancy (GO:0031413)
Namespace: biological_process
Definition: Any process that modulates an organism's tendency or ability to rise or float in a fluid medium such as water or air, often through the use of stored gases.
Synonyms: buoyancy regulation
N-terminal protein acetyltransferase complex (GO:0031414)
Namespace: cellular_component
Definition: A complex that catalyzes the transfer of an acetyl group to the N-terminal residue of a protein acceptor molecule.
Synonyms: NAT complex
NatA complex (GO:0031415)
Namespace: cellular_component
Definition: A conserved complex that catalyzes the transfer of an acetyl group to an N-terminal Ser, Ala, Gly, or Thr residue of a protein acceptor molecule. In Saccharomyces the complex includes Nat1p and Ard1p, and may contain additional proteins.
Synonyms: N-terminal acetyltransferase A complex
NatB complex (GO:0031416)
Namespace: cellular_component
Definition: A conserved complex that catalyzes the transfer of an acetyl group to the N-terminal residue of a protein acceptor molecule that has a Met-Glu, Met-Asp, Met-Asn, or Met-Met N-terminus. In Saccharomyces the complex includes Nat3p and Mdm20p.
Synonyms: N-terminal acetyltransferase B complex
NatC complex (GO:0031417)
Namespace: cellular_component
Definition: A conserved complex that catalyzes the transfer of an acetyl group to the N-terminal residue of a protein acceptor molecule that has a Met-Ile, Met-Leu, Met-Trp, or Met-Phe N-terminus. In Saccharomyces the complex includes Mak3p, Mak10p, and Mak31p.
Synonyms: N-terminal acetyltransferase C complex
L-ascorbic acid binding (GO:0031418)
Namespace: molecular_function
Definition: Binding to L-ascorbic acid, (2R)-2-[(1S)-1,2-dihydroxyethyl]-4-hydroxy-5-oxo-2,5-dihydrofuran-3-olate; L-ascorbic acid is vitamin C and has co-factor and anti-oxidant activities in many species.
Synonyms: L-ascorbate binding; vitamin C binding
cobalamin binding (GO:0031419)
Namespace: molecular_function
Definition: Binding to cobalamin (vitamin B12), a water-soluble vitamin characterized by possession of a corrin nucleus containing a cobalt atom.
Synonyms: vitamin B12 binding
alkali metal ion binding (GO:0031420)
Namespace: molecular_function
Definition: Binding to an alkali metal ion; alkali metals are those elements in group Ia of the periodic table, with the exception of hydrogen.
RecQ family helicase-topoisomerase III complex (GO:0031422)
Namespace: cellular_component
Definition: A complex containing a RecQ family helicase and a topoisomerase III homologue (a member of the topoisomerase type IA subfamily); may also include one or more additional proteins; conserved from E. coli to human.
Synonyms: RecQ helicase-Topo III complex; Sgs1-Top3 complex
hexon binding (GO:0031423)
Namespace: molecular_function
Definition: Binding to a hexon, the major protein component of the icosahedral capsid of an adenovirus.
keratinization (GO:0031424)
Namespace: biological_process
Definition: The process in which the cytoplasm of the outermost cells of the vertebrate epidermis is replaced by keratin. Keratinization occurs in the stratum corneum, feathers, hair, claws, nails, hooves, and horns.
chloroplast RNA processing (GO:0031425)
Namespace: biological_process
Definition: The conversion of a primary RNA molecule transcribed from a chloroplast genome into one or more mature RNA molecules.
response to methotrexate (GO:0031427)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a methotrexate stimulus. Methotrexate is 4-amino-10-methylformic acid, a folic acid analogue that is a potent competitive inhibitor of dihydrofolate reductase.
box C/D methylation guide snoRNP complex (GO:0031428)
Namespace: cellular_component
Definition: A ribonucleoprotein complex containing a box C/D type RNA that is capable of ribose-2'-O-methylation of target RNAs. Box C/D type RNAs are widespread in eukaryotes and in Archaea, suggesting that an RNA-based guide mechanism for directing specific RNA 2'-O-ribose methylations was present in the common ancestor of Archaea and Eukarya.
Synonyms: box C/D small nucleolar ribonucleoprotein complex; box C/D snoRNP complex; box C/D snoRNP ribose 2'-O methylase complex; box C/D snoRNP ribose-2'-O-methyltransferase complex; box C/D sRNP complex
box H/ACA snoRNP complex (GO:0031429)
Namespace: cellular_component
Definition: A box H/ACA small nucleolar ribonucleoprotein complex located in the nucleolus that catalyzes pseudouridylation of ribosomal RNA residues. The complex is composed of four different core proteins that assemble onto a H/ACA guide RNA scaffold that identifies specific uridines in rRNA for modification during ribosome synthesis.
Synonyms: box H/ACA small nucleolar ribonucleoprotein complex; box H/ACA snoRNP pseudouridylase complex
M band (GO:0031430)
Namespace: cellular_component
Definition: The midline of aligned thick filaments in a sarcomere; location of specific proteins that link thick filaments. Depending on muscle type the M band consists of different numbers of M lines.
Synonyms: M disc; M line; mesophragma; midline
Dbf4-dependent protein kinase complex (GO:0031431)
Namespace: cellular_component
Definition: A heterodimeric protein complex required for the activation of DNA replication origins; comprises a catalytic subunit and a regulatory subunit (in Saccharomyces, Cdc7p and Dbf4p, respectively); complexes identified in other species generally contain proteins related to the Saccharomyces proteins.
Synonyms: Cdc7-Dbf4 complex; DDK; Hsk1-Dfp1 kinase complex
titin binding (GO:0031432)
Namespace: molecular_function
Definition: Binding to titin, any of a family of giant proteins found in striated and smooth muscle. In striated muscle, single titin molecules span half the sarcomere, with their N- and C-termini in the Z-disc and M-line, respectively.
telethonin binding (GO:0031433)
Namespace: molecular_function
Definition: Binding to telethonin, a protein found in the Z disc of striated muscle and which is a substrate of the titin kinase.
mitogen-activated protein kinase kinase binding (GO:0031434)
Namespace: molecular_function
Definition: Binding to a mitogen-activated protein kinase kinase, a protein that can phosphorylate a MAP kinase.
Synonyms: MAPKK binding
mitogen-activated protein kinase kinase kinase binding (GO:0031435)
Namespace: molecular_function
Definition: Binding to a mitogen-activated protein kinase kinase kinase, a protein that can phosphorylate a MAP kinase kinase.
Synonyms: MAPKKK binding