# EDGAR Filing Document

**Accession Number:** 0001200375
**File Stem:** 0000919574-25-004908
**Filing Date:** 2025-8
**Character Count:** 15036
**Document Hash:** 4a1f9f9fc99af5fe7296e7b9d4e4a8d4
**Contains OCR:** False
**Source Format:** 

## Filing Content

## Filing Summary
**0000919574-25-004908.hdr.sgml**: 20250814

**ACCESSION NUMBER**: 0000919574-25-004908

**CONFORMED SUBMISSION TYPE**: SCHEDULE 13G/A

**PUBLIC DOCUMENT COUNT**: 2

**FILED AS OF DATE**: 20250814

**DATE AS OF CHANGE**: 20250814

**SUBJECT COMPANY**: 

**COMPANY DATA:**
- **COMPANY CONFORMED NAME:** CODEXIS, INC.
- **CENTRAL INDEX KEY:** 0001200375
- **STANDARD INDUSTRIAL CLASSIFICATION:** INDUSTRIAL ORGANIC CHEMICALS [2860]
- **ORGANIZATION NAME:** 08 Industrial Applications and Services
- **EIN:** 710872999
- **STATE OF INCORPORATION:** DE
- **FISCAL YEAR END:** 1231

**FILING VALUES:**
- **FORM TYPE:** SCHEDULE 13G/A
- **SEC ACT:** 1934 Act
- **SEC FILE NUMBER:** 005-85965
- **FILM NUMBER:** 251220076

**BUSINESS ADDRESS:**
- **STREET 1:** 200 PENOBSCOT DRIVE
- **CITY:** REDWOOD CITY
- **STATE:** CA
- **ZIP:** 94063
- **BUSINESS PHONE:** 650-421-8100

**MAIL ADDRESS:**
- **STREET 1:** 200 PENOBSCOT DRIVE
- **CITY:** REDWOOD CITY
- **STATE:** CA
- **ZIP:** 94063

**FORMER COMPANY:**
- **FORMER CONFORMED NAME:** CODEXIS INC
- **DATE OF NAME CHANGE:** 20021022
**FILED BY**: 

**COMPANY DATA:**
- **COMPANY CONFORMED NAME:** Casdin Capital, LLC
- **CENTRAL INDEX KEY:** 0001534261

**ORGANIZATION NAME:**
- **EIN:** 800752351
- **STATE OF INCORPORATION:** DE
- **FISCAL YEAR END:** 1231

**FILING VALUES:**
- **FORM TYPE:** SCHEDULE 13G/A

**BUSINESS ADDRESS:**
- **STREET 1:** 1350 AVENUE OF THE AMERICAS
- **STREET 2:** SUITE 2600
- **CITY:** NEW YORK
- **STATE:** NY
- **ZIP:** 10019
- **BUSINESS PHONE:** 212.300.5575

**MAIL ADDRESS:**
- **STREET 1:** 1350 AVENUE OF THE AMERICAS
- **STREET 2:** SUITE 2600
- **CITY:** NEW YORK
- **STATE:** NY
- **ZIP:** 10019

## Ex-99

<u>Exhibit A</u>

<u>JOINT FILING AGREEMENT</u>

The undersigned agree that this Schedule 13G Amendment No. 1 dated August 14, 2025 relating to the Common Stock, par value $0.0001 per share, of Codexis, Inc. shall be filed on behalf of the undersigned.

---

| |
|:---|
| &nbsp;&nbsp; CASDIN CAPITAL, LLC<br>By: /s/ Eli Casdin |
| &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Name: Eli Casdin |
| &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Title: Managing Member |

---

---

| |
|:---|
| &nbsp;&nbsp; CASDIN PARTNERS MASTER FUND, L.P.<br>By: /s/ Eli Casdin |
| &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Name: Eli Casdin |
| &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Title: Managing Member of its general partner |

---

---

| |
|:---|
| &nbsp;&nbsp; CASDIN PARTNERS GP, LLC<br>By: /s/ Eli Casdin |
| &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Name: Eli Casdin |
| &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Title: Managing Member |

---

&nbsp;&nbsp; ELI CASDIN<br>By: /s/ Eli Casdin<br>

### UNITED STATES SECURITIES AND EXCHANGE COMMISSION
**Washington, D.C. 20549**

## SCHEDULE 13G

### Under the Securities Exchange Act of 1934

**(Amendment No. 1)**

**Issuer:** Codexis, Inc.

**Title of Class of Securities:** Common Stock, par value $0.0001 per share

**CUSIP Number:** 192005106

**Date of Event Which Requires Filing of this Statement:** 06/30/2025

**Check the appropriate box to designate the rule pursuant to which this Schedule is filed:**

- [ ] Rule 13d-1(b)

- [x] Rule 13d-1(c)

- [ ] Rule 13d-1(d)

---

| 1. | Names of Reporting Persons<br>Casdin Capital, LLC | Names of Reporting Persons<br>Casdin Capital, LLC |
|:---|:---|:---|:---|
| 2. | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] |
| 3. | SEC Use Only | SEC Use Only |
| 4. | Citizenship or Place of Organization<br>DE | Citizenship or Place of Organization<br>DE |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 5. | Sole Voting Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 6. | Shared Voting Power<br>7200000.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 7. | Sole Dispositive Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 8. | Shared Dispositive Power<br>7200000.00 |
| 9. | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 |
| 10. | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] |
| 11. | Percent of Class Represented by Amount in Row (9)<br>8.7% | Percent of Class Represented by Amount in Row (9)<br>8.7% |
| 12. | Type of Reporting Person (See Instructions)<br>IA | Type of Reporting Person (See Instructions)<br>IA |

---

| 1. | Names of Reporting Persons<br>Casdin Partners Master Fund, L.P. | Names of Reporting Persons<br>Casdin Partners Master Fund, L.P. |
|:---|:---|:---|:---|
| 2. | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] |
| 3. | SEC Use Only | SEC Use Only |
| 4. | Citizenship or Place of Organization<br>E9 | Citizenship or Place of Organization<br>E9 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 5. | Sole Voting Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 6. | Shared Voting Power<br>7200000.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 7. | Sole Dispositive Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 8. | Shared Dispositive Power<br>7200000.00 |
| 9. | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 |
| 10. | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] |
| 11. | Percent of Class Represented by Amount in Row (9)<br>8.7% | Percent of Class Represented by Amount in Row (9)<br>8.7% |
| 12. | Type of Reporting Person (See Instructions)<br>PN | Type of Reporting Person (See Instructions)<br>PN |

---

| 1. | Names of Reporting Persons<br>Casdin Partners GP, LLC | Names of Reporting Persons<br>Casdin Partners GP, LLC |
|:---|:---|:---|:---|
| 2. | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] |
| 3. | SEC Use Only | SEC Use Only |
| 4. | Citizenship or Place of Organization<br>DE | Citizenship or Place of Organization<br>DE |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 5. | Sole Voting Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 6. | Shared Voting Power<br>7200000.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 7. | Sole Dispositive Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 8. | Shared Dispositive Power<br>7200000.00 |
| 9. | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 |
| 10. | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] |
| 11. | Percent of Class Represented by Amount in Row (9)<br>8.7% | Percent of Class Represented by Amount in Row (9)<br>8.7% |
| 12. | Type of Reporting Person (See Instructions)<br>OO | Type of Reporting Person (See Instructions)<br>OO |

---

| 1. | Names of Reporting Persons<br>Eli Casdin | Names of Reporting Persons<br>Eli Casdin |
|:---|:---|:---|:---|
| 2. | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] | Check the Appropriate Box if a Member of a Group (See Instructions)<br>(a) [ ] (b) [ ] |
| 3. | SEC Use Only | SEC Use Only |
| 4. | Citizenship or Place of Organization<br>X1 | Citizenship or Place of Organization<br>X1 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 5. | Sole Voting Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 6. | Shared Voting Power<br>7200000.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 7. | Sole Dispositive Power<br>0.00 |
| Number of<br>Shares<br>Beneficially<br>Owned by<br>Each<br>Reporting<br>Person<br>With | 8. | Shared Dispositive Power<br>7200000.00 |
| 9. | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 | Aggregate Amount Beneficially Owned by Each Reporting Person<br>7200000.00 |
| 10. | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] | Check if the Aggregate Amount in Row (9) Excludes Certain Shares (See Instructions) [ ] |
| 11. | Percent of Class Represented by Amount in Row (9)<br>8.7% | Percent of Class Represented by Amount in Row (9)<br>8.7% |
| 12. | Type of Reporting Person (See Instructions)<br>HC, IN | Type of Reporting Person (See Instructions)<br>HC, IN |

---

**Item 1(a). Name of Issuer:**
Codexis, Inc.

**Item 1(b). Address of Issuer's Principal Executive Offices:**
200 Penobscot Drive, Redwood City, CA 94063

**Item 2(a). Name of Person Filing:**
Casdin Capital, LLC
Casdin Partners Master Fund, L.P.
Casdin Partners GP, LLC
Eli Casdin

**Item 2(b). Address of Principal Business Office:**
Casdin Capital, LLC
1350 Avenue of the Americas, Suite 2600
New York, New York 10019

Casdin Partners Master Fund, L.P.
1350 Avenue of the Americas, Suite 2600
New York, New York 10019

Casdin Partners GP, LLC
1350 Avenue of the Americas, Suite 2600
New York, New York 10019

Eli Casdin
1350 Avenue of the Americas, Suite 2600
New York, New York 10019

**Item 2(c). Citizenship:**
Casdin Capital, LLC - Delaware
Casdin Partners Master Fund, L.P. - Cayman Islands
Casdin Partners GP, LLC - Delaware
Eli Casdin - United States

**Item 2(d). Title of Class of Securities:**
Common Stock, par value $0.0001 per share

**Item 2(e). CUSIP Number:**
192005106

**Item 3. If this statement is filed pursuant to §§ 240.13d-1(b) or 240.13d-2(b) or (c), check whether the person filing is a:**

(a) [ ] Broker or dealer registered under section 15 of the Act (15 U.S.C. 78o).

(b) [ ] Bank as defined in section 3(a)(6) of the Act (15 U.S.C. 78c).

(c) [ ] Insurance company as defined in section 3(a)(19) of the Act (15 U.S.C. 78c).

(d) [ ] Investment company registered under section 8 of the Investment Company Act of 1940 (15 U.S.C. 80a-8).

(e) [ ] An investment adviser in accordance with § 240.13d-1(b)(1)(ii)(E);

(f) [ ] An employee benefit plan or endowment fund in accordance with § 240.13d-1(b)(1)(ii)(F);

(g) [ ] A parent holding company or control person in accordance with § 240.13d-1(b)(1)(ii)(G);

(h) [ ] A savings associations as defined in Section 3(b) of the Federal Deposit Insurance Act (12 U.S.C. 1813);

(i) [ ] A church plan that is excluded from the definition of an investment company under section 3(c)(14) of the Investment Company Act of 1940 (15 U.S.C. 80a-3);

(j) [ ] A non-U.S. institution in accordance with § 240.13d-1(b)(1)(ii)(J), if filing as a non-U.S. institution in accordance with § 240.13d-1(b)(1)(ii)(J), please specify the type of institution:

(k) [ ] Group, in accordance with Rule 240.13d-1(b)(1)(ii)(K).

**Item 4. Ownership:**

**(a) Amount beneficially owned:**

Casdin Capital, LLC - 7,200,000
Casdin Partners Master Fund, L.P. - 7,200,000
Casdin Partners GP, LLC - 7,200,000
Eli Casdin - 7,200,000

**(b) Percent of class:**

Casdin Capital, LLC - 8.7%
Casdin Partners Master Fund, L.P. - 8.7%
Casdin Partners GP, LLC - 8.7%
Eli Casdin - 8.7%

**(c) Number of shares as to which the person has:**

**(i) Sole power to vote or to direct the vote:**

Casdin Capital, LLC - 0
Casdin Partners Master Fund, L.P. - 0
Casdin Partners GP, LLC - 0
Eli Casdin - 0

**(ii) Shared power to vote or to direct the vote:**

Casdin Capital, LLC - 7,200,000
Casdin Partners Master Fund, L.P. - 7,200,000
Casdin Partners GP, LLC - 7,200,000
Eli Casdin - 7,200,000

**(iii) Sole power to dispose or to direct the disposition of:**

Casdin Capital, LLC - 0
Casdin Partners Master Fund, L.P. - 0
Casdin Partners GP, LLC - 0
Eli Casdin - 0

**(iv) Shared power to dispose or to direct the disposition of:**

Casdin Capital, LLC - 7,200,000
Casdin Partners Master Fund, L.P. - 7,200,000
Casdin Partners GP, LLC - 7,200,000
Eli Casdin - 7,200,000

**Item 5. Ownership of Five Percent or Less of a Class.**

[x] If this statement is being filed to report the fact that as of the date hereof the reporting person has ceased to be the beneficial owner of more than five percent of the class of securities, check the following.

**Item 6. Ownership of More than 5 Percent on Behalf of Another Person.**

All of the securities reported in this Schedule 13G are directly owned by advisory clients of Casdin Capital, LLC. None of those advisory clients, other than Casdin Partners Master Fund, L.P., may be deemed to beneficially own more than 5% of the Common Stock, par value $0.0001 per share.

**Item 7. Identification and Classification of the Subsidiary**

Not Applicable

**Item 8. Identification and Classification of Members of the Group**

Not Applicable

**Item 9. Notice of Dissolution of Group**

Not Applicable

**Item 10. Certification:**

By signing below I certify that, to the best of my knowledge and belief, the securities referred to above were not acquired and are not held for the purpose of or with the effect of changing or influencing the control of the issuer of the securities and were not acquired and are not held in connection with or as a participant in any transaction having that purpose or effect, other than activities solely in connection with a nomination under ?? 240.14a-11.

### SIGNATURE

After reasonable inquiry and to the best of my knowledge and belief, I certify that the information set forth in this statement is true, complete and correct.

**Casdin Capital, LLC**

**Date:** 08/14/2025

**By:** /s/ Eli Casdin

**Name & Title:** Eli Casdin/Managing Member

**Casdin Partners Master Fund, L.P.**

**Date:** 08/14/2025

**By:** /s/ Eli Casdin

**Name & Title:** Eli Casdin/Managing Member of its general partner

**Casdin Partners GP, LLC**

**Date:** 08/14/2025

**By:** /s/ Eli Casdin

**Name & Title:** Eli Casdin/Managing Member

**Eli Casdin**

**Date:** 08/14/2025

**By:** /s/ Eli Casdin

**Name & Title:** Eli Casdin