SC 13D/A 1 b66058a1sc13dza.txt MIDWOOD CAPITAL MANAGEMENT LLC ------------------------------ OMB APPROVAL OMB Number: 3235-0145 Expires: February 28, 2009 Estimated average burden hours per response. . . 14.5 ------------------------------ UNITED STATES SECURITIES AND EXCHANGE COMMISSION Washington, D.C. 20549 SCHEDULE 13D UNDER THE SECURITIES EXCHANGE ACT OF 1934 (AMENDMENT NO. 1)* Tripos, Inc. -------------------------------------------------------------------------------- (Name of Issuer) Common Stock, par value $.01 per share -------------------------------------------------------------------------------- (Title of Class of Securities) 896928108 -------------------------------------------------------------------------------- (CUSIP Number) Midwood Capital Management LLC Attn: David E. Cohen 575 Boylston St. 4th Floor Boston, MA 02116 617-224-1751 With a copy to: Peter M. Rosenblum, Esq. Foley Hoag LLP 155 Seaport Blvd. Boston, MA 02210 617-832-1151 -------------------------------------------------------------------------------- (Name, Address and Telephone Number of Person Authorized to Receive Notices and Communications) June 28, 2007 -------------------------------------------------------------------------------- (Date of Event which Requires Filing of this Statement) If the filing person has previously filed a statement on Schedule 13G to report the acquisition that is the subject of this Schedule 13D, and is filing this schedule because of Sections 240.13d-1(e), 240.13d-1(f) or 240.13d-1(g), check the following box. [ ] NOTE: Schedules filed in paper format shall include a signed original and five copies of the schedule, including all exhibits. See Section 240.13d-7 for other parties to whom copies are sent. *The remainder of this cover page shall be filled out for a reporting person's initial filing on this form with respect to the subject class of securities, and for any subsequent amendment containing information which would alter disclosures provided in a prior cover page The information required on the remainder of this cover page shall not be deemed to be "filed" for the purpose of Section 18 of the Securities Exchange Act of 1934 ("Act") or otherwise subject to the liabilities of that section of the Act but shall be subject to all other provisions of the Act (however, see the Notes). PERSONS WHO RESPOND TO THE COLLECTION OF INFORMATION CONTAINED IN THIS FORM ARE NOT REQUIRED TO RESPOND UNLESS THE FORM DISPLAYS A CURRENTLY VALID OMB CONTROL NUMBER SEC 1746(1-06) ------------------------------------------------------------------------------------------------------------------------------ CUSIP NO. 896928108 13D PAGE 2 OF 10 PAGES ------------------------------------------------------------------------------------------------------------------------------ 1. Names of Reporting Persons. I.R.S. Identification Nos. of above persons (entities only). David E. Cohen ------------------------------------------------------------------------------------------------------------------------------ 2. Check the Appropriate Box if a Member of a Group (See Instructions) (a) [ ] (b) [ ] ------------------------------------------------------------------------------------------------------------------------------ 3. SEC Use Only ------------------------------------------------------------------------------------------------------------------------------ 4. Source of Funds (See Instructions) OO ------------------------------------------------------------------------------------------------------------------------------ 5. Check if Disclosure of Legal Proceedings Is Required Pursuant to Items 2(d) or 2(e) [ ] ------------------------------------------------------------------------------------------------------------------------------ 6. Citizenship or Place of Organization USA ------------------------------------------------------------------------------------------------------------------------------ Number of 7. Sole Voting Power Shares ------------------------------------------------------------------------------------------------------------ Beneficially 8. Shared Voting Power 0 Owned by ------------------------------------------------------------------------------------------------------------ Each 9. Sole Dispositive Power Reporting ------------------------------------------------------------------------------------------------------------ Person With 10. Shared Dispositive Power 0 ------------------------------------------------------------------------------------------------------------------------------ 11. Aggregate Amount Beneficially Owned by Each Reporting Person 0 ------------------------------------------------------------------------------------------------------------------------------ 12. Check if the Aggregate Amount in Row (11) Excludes Certain Shares (See Instructions) [ ] ------------------------------------------------------------------------------------------------------------------------------ 13. Percent of Class Represented by Amount in Row (11) 0.0% ------------------------------------------------------------------------------------------------------------------------------ 14. Type of Reporting Person (See Instructions) IN ------------------------------------------------------------------------------------------------------------------------------

------------------------------------------------------------------------------------------------------------------------------ CUSIP NO. 896928108 13D PAGE 3 OF 10 PAGES ------------------------------------------------------------------------------------------------------------------------------ 1. Names of Reporting Persons. I.R.S. Identification Nos. of above persons (entities only). Ross D. DeMont ------------------------------------------------------------------------------------------------------------------------------ 2. Check the Appropriate Box if a Member of a Group (See Instructions) (a) [ ] (b) [ ] ------------------------------------------------------------------------------------------------------------------------------ 3. SEC Use Only ------------------------------------------------------------------------------------------------------------------------------ 4. Source of Funds (See Instructions) OO ------------------------------------------------------------------------------------------------------------------------------ 5. Check if Disclosure of Legal Proceedings Is Required Pursuant to Items 2(d) or 2(e) [ ] ------------------------------------------------------------------------------------------------------------------------------ 6. Citizenship or Place of Organization USA ------------------------------------------------------------------------------------------------------------------------------ Number of 7. Sole Voting Power Shares ------------------------------------------------------------------------------------------------------------ Beneficially 8. Shared Voting Power 0 Owned by ------------------------------------------------------------------------------------------------------------ Each 9. Sole Dispositive Power Reporting ------------------------------------------------------------------------------------------------------------ Person With 10. Shared Dispositive Power 0 ------------------------------------------------------------------------------------------------------------------------------ 11. Aggregate Amount Beneficially Owned by Each Reporting Person 0 ------------------------------------------------------------------------------------------------------------------------------ 12. Check if the Aggregate Amount in Row (11) Excludes Certain Shares (See Instructions) [ ] ------------------------------------------------------------------------------------------------------------------------------ 13. Percent of Class Represented by Amount in Row (11) 0.0% ------------------------------------------------------------------------------------------------------------------------------ 14. Type of Reporting Person (See Instructions) IN ------------------------------------------------------------------------------------------------------------------------------

------------------------------------------------------------------------------------------------------------------------------ CUSIP NO. 896928108 13D PAGE 4 OF 10 PAGES ------------------------------------------------------------------------------------------------------------------------------ 1. Names of Reporting Persons. I.R.S. Identification Nos. of above persons (entities only). Midwood Capital Management LLC I.R.S. Identification No. 14-1885029 ------------------------------------------------------------------------------------------------------------------------------ 2. Check the Appropriate Box if a Member of a Group (See Instructions) (a) [ ] (b) [ ] ------------------------------------------------------------------------------------------------------------------------------ 3. SEC Use Only ------------------------------------------------------------------------------------------------------------------------------ 4. Source of Funds (See Instructions) OO ------------------------------------------------------------------------------------------------------------------------------ 5. Check if Disclosure of Legal Proceedings Is Required Pursuant to Items 2(d) or 2(e) [ ] ------------------------------------------------------------------------------------------------------------------------------ 6. Citizenship or Place of Organization Delaware ------------------------------------------------------------------------------------------------------------------------------ Number of 7. Sole Voting Power 0 Shares ------------------------------------------------------------------------------------------------------------ Beneficially 8. Shared Voting Power Owned by ------------------------------------------------------------------------------------------------------------ Each 9. Sole Dispositive Power 0 Reporting ------------------------------------------------------------------------------------------------------------ Person With 10. Shared Dispositive Power ------------------------------------------------------------------------------------------------------------------------------ 11. Aggregate Amount Beneficially Owned by Each Reporting Person 0 ------------------------------------------------------------------------------------------------------------------------------ 12. Check if the Aggregate Amount in Row (11) Excludes Certain Shares (See Instructions) [ ] ------------------------------------------------------------------------------------------------------------------------------ 13. Percent of Class Represented by Amount in Row (11) 0.0% ------------------------------------------------------------------------------------------------------------------------------ 14. Type of Reporting Person (See Instructions) IA ------------------------------------------------------------------------------------------------------------------------------

------------------------------------------------------------------------------------------------------------------------------ CUSIP NO. 896928108 13D PAGE 5 OF 10 PAGES ------------------------------------------------------------------------------------------------------------------------------ 1. Names of Reporting Persons. I.R.S. Identification Nos. of above persons (entities only). Midwood Capital Partners, L.P. I.R.S. Identification No. 27-0060548 ------------------------------------------------------------------------------------------------------------------------------ 2. Check the Appropriate Box if a Member of a Group (See Instructions) (a) [ ] (b) [ ] ------------------------------------------------------------------------------------------------------------------------------ 3. SEC Use Only ------------------------------------------------------------------------------------------------------------------------------ 4. Source of Funds (See Instructions) OO ------------------------------------------------------------------------------------------------------------------------------ 5. Check if Disclosure of Legal Proceedings Is Required Pursuant to Items 2(d) or 2(e) [ ] ------------------------------------------------------------------------------------------------------------------------------ 6. Citizenship or Place of Organization Delaware ------------------------------------------------------------------------------------------------------------------------------ Number of 7. Sole Voting Power 0 Shares ------------------------------------------------------------------------------------------------------------ Beneficially 8. Shared Voting Power Owned by ------------------------------------------------------------------------------------------------------------ Each 9. Sole Dispositive Power 0 Reporting ------------------------------------------------------------------------------------------------------------ Person With 10. Shared Dispositive Power ------------------------------------------------------------------------------------------------------------------------------ 11. Aggregate Amount Beneficially Owned by Each Reporting Person 0 ------------------------------------------------------------------------------------------------------------------------------ 12. Check if the Aggregate Amount in Row (11) Excludes Certain Shares (See Instructions) [ ] ------------------------------------------------------------------------------------------------------------------------------ 13. Percent of Class Represented by Amount in Row (11) 0.0% ------------------------------------------------------------------------------------------------------------------------------ 14. Type of Reporting Person (See Instructions) PN ------------------------------------------------------------------------------------------------------------------------------

------------------------------------------------------------------------------------------------------------------------------ CUSIP NO. 896928108 13D PAGE 6 OF 10 PAGES ------------------------------------------------------------------------------------------------------------------------------ 1. Names of Reporting Persons. I.R.S. Identification Nos. of above persons (entities only). Midwood Capital Partners QP, L.P. I.R.S. Identification No. 42-1657728 ------------------------------------------------------------------------------------------------------------------------------ 2. Check the Appropriate Box if a Member of a Group (See Instructions) (a) [ ] (b) [ ] ------------------------------------------------------------------------------------------------------------------------------ 3. SEC Use Only ------------------------------------------------------------------------------------------------------------------------------ 4. Source of Funds (See Instructions) OO ------------------------------------------------------------------------------------------------------------------------------ 5. Check if Disclosure of Legal Proceedings Is Required Pursuant to Items 2(d) or 2(e) [ ] ------------------------------------------------------------------------------------------------------------------------------ 6. Citizenship or Place of Organization Delaware ------------------------------------------------------------------------------------------------------------------------------ Number of 7. Sole Voting Power 0 Shares ------------------------------------------------------------------------------------------------------------ Beneficially 8. Shared Voting Power Owned by ------------------------------------------------------------------------------------------------------------ Each 9. Sole Dispositive Power 0 Reporting ------------------------------------------------------------------------------------------------------------ Person With 10. Shared Dispositive Power ------------------------------------------------------------------------------------------------------------------------------ 11. Aggregate Amount Beneficially Owned by Each Reporting Person 0 ------------------------------------------------------------------------------------------------------------------------------ 12. Check if the Aggregate Amount in Row (11) Excludes Certain Shares (See Instructions) [ ] ------------------------------------------------------------------------------------------------------------------------------ 13. Percent of Class Represented by Amount in Row (11) 0.0% ------------------------------------------------------------------------------------------------------------------------------ 14. Type of Reporting Person (See Instructions) PN ------------------------------------------------------------------------------------------------------------------------------

CUSIP NO. 896928108 Page 7 of 10 Items 5, 6 and 7 of the joint statement on Schedule 13D as filed by David E. Cohen, Ross D. DeMont, Midwood Capital Management LLC, Midwood Capital Partners, L.P. and Midwood Capital Partners QP, L.P., (who are collectively referred to as the "Reporting Persons") in respect of the Common Stock of Tripos, Inc., a Utah corporation, are hereby amended and supplemented as follows: ITEM 5. INTEREST IN SECURITIES OF THE ISSUER (a) The Reporting Persons beneficially own no shares of the Common Stock of the Issuer, representing 0.0% of such class of securities. The percentage of the Common Stock beneficially owned by each Reporting Person is based on a total of 10,392,835 shares of the Common Stock of the Issuer outstanding as of June 11, 2007, as reported in the most recent annual report of the Issuer on Form 10-Q for the fiscal quarter ended March 31, 2007. (b) By virtue of their positions as managers of Capital, each of the Managers has the shared authority to vote and dispose of the shares of Warrants reported in this joint statement Schedule 13D on behalf of the Funds. (c) On May 4, 2006 the Reporting Persons collectively acquired 1,833,333 shares of Series C Preferred Stock of the Issuer, par value $.01 per share (the "Series C Preferred Stock") and warrants to purchase 550,000 shares of the Common Stock (the "Warrants"), for an aggregate purchase price of $5,500,000.00 or $3.00 per share of Series C Preferred Stock and associated fractional Warrant. The purchase and sale of the Series C Preferred Stock and Warrants was conducted pursuant to a Stock Purchase Agreement dated May 4, 2006 between the Funds and the Issuer. On June 28, 2007, all of such shares of Series C Preferred Stock were surrendered to the Company against payment to the Reporting Persons of an amount equal to $5,978,833.33, or approximately $3.26 per share, which payment was accepted by the Reporting Persons as full and final payment due with respect to such shares of Series C Preferred Stock upon liquidation of the Issuer (or an event deemed to be a liquidation pursuant to the terms of the Issuer's Articles of Incorporation). Concurrently with such liquidation, the Warrants were surrendered to the Company for termination. (d) N/A (e) As of June 28, 2007, the Reporting Persons ceased to hold 5% or more of the Common Stock of the Issuer. ITEM 6. CONTRACTS, ARRANGEMENTS, UNDERSTANDINGS OR RELATIONSHIPS WITH RESPECT TO SECURITIES OF THE ISSUER The Reporting Persons are parties to a Joint Filing Agreement dated May 15, 2006 relating to the filing of this Schedule 13D, a copy of which was attached as Exhibit 1 to the original filing of this Schedule 13D as filed by the Reporting Persons on May 15, 2006 and which is incorporated herein by reference. In connection with the purchase and sale of the Warrants and Series C Preferred Stock, the following agreements were entered into by Reporting Persons and the Issuer: the Warrants issued to each of the Funds, a Stock Purchase Agreement between the Funds and the Issuer dated May 4, 2006 and a Registration Rights Agreement between the Funds and the Issuer dated Page 8 of 10 May 4, 2006, copies of which were attached as Exhibits 3 through 6 to the original filing of this Schedule 13D as filed by the Reporting Persons on May 15, 2006 and which are incorporated herein by reference. Except as described above or otherwise in this Schedule 13D, including the Exhibits attached hereto or incorporated herein by reference, there are no contracts, arrangements, understandings, or relationships (legal or otherwise) among the Reporting Persons, or between any Reporting Person(s) and any third party, with respect to any securities of the Issuer, including, but not limited to, transfer or voting any of the securities, finder's fees, joint ventures, loan or option arrangements, put or calls, guarantees of profits, division of profits or losses, or the giving or withholding of proxies. ITEM 7. MATERIAL TO BE FILED AS EXHIBITS Exhibit 7 Letter dated June 20, 2007 from Ross DeMont to the Issuer regarding the liquidation payment with respect to the Series C Preferred Stock. Exhibit 8 Letter agreement dated July 12, 2007, confirming agreement of the Issuer and the Reporting Persons regarding termination of the Warrants. CUSIP NO. 896928108 Page 9 of 10 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. DATE: July 12, 2007 ------------------------ MIDWOOD CAPITAL PARTNERS, L.P. By: Midwood Capital Management, LLC General Partner By: /s/ David E. Cohen ----------------------------------- David E. Cohen Manager MIDWOOD CAPITAL PARTNERS QP, L.P. By: Midwood Capital Management, LLC General Partner By: /s/ David E. Cohen ----------------------------------- David E. Cohen Manager MIDWOOD CAPITAL MANAGEMENT, LLC By: /s/ David E. Cohen ----------------------------------- David E. Cohen Manager CUSIP NO. 896928108 Page 10 of 10 DAVID E. COHEN By: /s/ David E. Cohen ----------------------------------- David E. Cohen ROSS D. DEMONT By: /s/ Ross D. DeMont ----------------------------------- Ross D. DeMont Exhibit 7 MIDWOOD CAPITAL MANAGEMENT, LLC -------------------------------------------------------------------------------- 575 Boylston Street 4th Floor Boston, MA 02116 (617) 224-1753 (617) 224-1769 (fax) June 20, 2007 John P. McAlister, Ph.D. President & CEO Tripos, Inc. 1699 S. Hanley Road St. Louis, MO 63144 Dear Mr. McAlister: Detailed below is a statement of items outstanding relating to Tripos' Series C Convertible Preferred Stock owned collectively by Midwood Capital Partners, L.P. and Midwood Capital Partners QP, L.P. (Collectively referred to as "Midwood").

Please contact our CFO Chris Mickelson at (617) 224-1753 for the wiring instructions of each entity. As long as the total receivable is wired and received in our accounts on or before June 29th, 2007, we will consider the Series C Convertible Preferred Stock paid-in-full. Sincerely, /s/ Ross D. DeMont Ross D. DeMont, Principal Exhibit 8 MIDWOOD CAPITAL MANAGEMENT, LLC -------------------------------------------------------------------------------- 575 Boylston Street 4th Floor Boston, MA 02116 (617) 224-1753 (617) 224-1769 (fax) July 12, 2007 John P. McAlister, Ph.D. President & CEO Tripos, Inc. 1699 S. Hanley Road St. Louis, MO 63144 Dear Mr. McAlister: This letter is to confirm our agreement that concurrent with the liquidation of 1,833,333 shares of Series C Convertible Preferred Stock of Tripos, Inc. ("Tripos") owned collectively by Midwood Capital Partners, L.P. and Midwood Capital Partners QP, L.P. (collectively referred to as "Midwood") on June 28, 2007, in accordance with a letter agreement dated as of June 20, 2007, Midwood delivered to Tripos for termination, warrants to purchase 550,000 shares of Common Stock of Tripos then held by Midwood, Midwood relinquished and released all rights in the warrants, and Midwood and Tripos mutually agree all such warrants were terminated and are of no further force and effect, effective as of such June 28, 2007 delivery. OUTSTANDING WARRANTS ($3.50 EXERCISE PRICE): -------------------------------------------- Midwood Capital Partners, L.P. 244,723 Midwood Capital Partners QP, L.P. 305,277 ---------- Total subject to termination 550,000 ==========

Please acknowledge your agreement to the mutual termination above by signing below. Sincerely, /s/ Ross D. DeMont Ross D. DeMont, Principal Acknowledged and Agreed: /s/ John McAlister -------------------------- John McAlister, President & CEO

TRIPOS INC SC 13D/A