------------------------------------------------------------------------------ UNITED STATES SECURITIES AND EXCHANGE COMMISSION WASHINGTON, D.C. 20549 --------------------------- SCHEDULE 13D Under the Securities Exchange Act of 1934* --------------------------- 3-DIMENSIONAL PHARMACEUTICALS, INC. (Name of Issuer) --------------------------- COMMON STOCK, PAR VALUE $0.001 PER SHARE (Title of Class of Securities) --------------------------- 88554W104 (CUSIP Number) --------------------------- JOHN T. CRISAN, ESQ. JOHNSON & JOHNSON ONE JOHNSON & JOHNSON PLAZA NEW BRUNSWICK, NEW JERSEY 08933 TELEPHONE: (732) 524-0400 (Name, Address and Telephone Number of Person Authorized to Receive Notices and Communications) ------------------------------------ Copy to: ROBERT I. TOWNSEND, III, ESQ. CRAVATH, SWAINE & MOORE WORLDWIDE PLAZA 825 EIGHTH AVENUE NEW YORK, NY 10019 (212) 474-1000 ------------------------------------ JANUARY 15, 2003 (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 ss. 240.13d-1(e), 240.13d-1(f) or 240.13d-1(g), check the following box. o NOTE: Schedules filed in paper format shall include a signed original and five copies of the schedule, including all exhibits. See Rule 240.13d-7(b) for other parties to whom copies are to be 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). (Continued on following pages) CUSIP No. 88554W104 ________________________________________________________________________________ 1 NAME OF REPORTING PERSONS JOHNSON & JOHNSON I.R.S. IDENTIFICATION NOS. OF ABOVE PERSONS (ENTITIES ONLY) I.R.S. I.D. #22-1024240 ________________________________________________________________________________ 2 CHECK THE APPROPRIATE BOX IF A MEMBER OF A GROUP* (a) [_] (b) [_] ________________________________________________________________________________ 3 SEC USE ONLY ________________________________________________________________________________ 4 SOURCE OF FUNDS* OO ________________________________________________________________________________ 5 CHECK BOX IF DISCLOSURE OF LEGAL PROCEEDINGS IS REQUIRED PURSUANT TO ITEMS 2(d) OR 2(e) [_] ________________________________________________________________________________ 6 CITIZENSHIP OR PLACE OF ORGANIZATION NEW JERSEY ________________________________________________________________________________ 7 SOLE VOTING POWER NUMBER OF NONE SHARES _________________________________________________________________ 8 SHARED VOTING POWER BENEFICIALLY 7,456,600 OWNED BY _________________________________________________________________ EACH 9 SOLE DISPOSITIVE POWER REPORTING NONE PERSON _________________________________________________________________ 10 SHARED DISPOSITIVE POWER WITH NONE ________________________________________________________________________________ 11 AGGREGATE AMOUNT BENEFICIALLY OWNED BY EACH REPORTING PERSON 7,456,600 ________________________________________________________________________________ 12 CHECK BOX IF THE AGGREGATE AMOUNT IN ROW (11) EXCLUDES CERTAIN SHARES* [_] ________________________________________________________________________________ 13 PERCENT OF CLASS REPRESENTED BY AMOUNT IN ROW (11) 33.0% ________________________________________________________________________________ 14 TYPE OF REPORTING PERSON* CO Neither the filing of this Schedule 13D nor any of its contents shall be deemed to constitute an admission by Johnson & Johnson that it is the beneficial owner of any of the common stock of 3-Dimensional Pharmaceuticals, Inc. referred to herein for purposes of Section 13(d) of the Securities Exchange Act of 1934, as amended (the "Exchange Act"), or for any other purpose, and such beneficial ownership is expressly disclaimed. ITEM 1. SECURITY AND ISSUER This statement on Schedule 13D relates to the common stock, par value $0.001 per share (the "Issuer Common Stock"), of 3-Dimensional Pharmaceuticals, Inc., a Delaware corporation (the "Issuer"). The principal executive offices of the Issuer are located at 1020 Stony Hill Road, Yardley, PA 19067. ITEM 2. IDENTITY AND BACKGROUND (a) The name of the person filing this statement is Johnson & Johnson, a New Jersey corporation ("Johnson & Johnson"). (b) The address of the principal office and principal business of Johnson & Johnson is One Johnson & Johnson Plaza, New Brunswick, NJ 08933. (c) Johnson & Johnson is engaged in the manufacture and sale of a broad range of products in the healthcare field in many countries of the world. Set forth in Schedule A hereto, which is incorporated herein by reference, is the name, business address, present principal occupation or employment and the name, principal business and address of any corporation or other organization in which such employment is conducted and citizenship, of each of Johnson & 2 Johnson's directors and executive officers, as of the date hereof. Other than such directors and executive officers, there are no persons controlling Johnson & Johnson. (d) During the past five years, neither Johnson & Johnson nor, to Johnson & Johnson's knowledge, any person named in Schedule A hereto, has been convicted in a criminal proceeding (excluding traffic violations or similar misdemeanors). (e) During the past five years, neither Johnson & Johnson nor, to Johnson & Johnson's knowledge, any person named in Schedule A hereto, was a party to a civil proceeding of a judicial or administrative body of competent jurisdiction as a result of which such person was or is subject to a judgment, decree or final order enjoining future violations of, or prohibiting or mandating activity subject to, federal or state securities laws or finding any violation with respect to such laws. (f) Not applicable. ITEM 3. SOURCE AND AMOUNT OF FUNDS OR OTHER CONSIDERATION Pursuant to the Stockholder Agreement, dated as of January 15, 2003 (the "Stockholder Agreement"), among Johnson & Johnson and certain stockholders of the Issuer set forth on Schedule A thereto (collectively, the "Stockholders"), Johnson & Johnson may be deemed to be the beneficial owner of 7,456,600 shares of Issuer Common Stock (collectively, the "Subject Shares"). Johnson & Johnson and the Stockholders entered into the Stockholder Agreement to induce Johnson & Johnson to enter into the Agreement and Plan of Merger, dated as of January 15, 2003 (the "Merger Agreement"), among Johnson & Johnson, Longbow Merger Sub, Inc., a Delaware corporation and a wholly owned subsidiary of Johnson & Johnson ("Merger Sub"), and the Issuer. Pursuant to the Merger Agreement, Merger Sub will merge with and into the Issuer (the "Merger"), with the Issuer continuing as the surviving corporation in the Merger (the "Surviving Corporation") as a wholly owned subsidiary of Johnson & Johnson. In the Merger, each share of Issuer Common Stock will be converted into the right to receive $5.74 in cash, without interest. The Merger is subject to certain conditions. The descriptions of the Merger Agreement and the Stockholder Agreement contained herein are qualified in their entirety by reference to such agreements, which are attached hereto as Exhibits 1 and 2, respectively. ITEM 4. PURPOSE OF TRANSACTION (a)-(b) The Stockholder Agreement was entered into as a condition to the willingness of Johnson & Johnson to enter into the Merger Agreement and to increase the likelihood that the approval of the Issuer's stockholders required in connection with the Merger will be obtained. See the response to Item 3 for a more complete description of the Merger. Pursuant to the terms of the Stockholder Agreement, any shares of capital stock of the Issuer acquired by certain of the Stockholders after the date of the Stockholder Agreement and during the term of the Stockholder Agreement (including through the exercise of any stock options, warrants or similar instruments) will be subject to the Stockholder Agreement. Accordingly, any such acquisition of shares of capital stock of the Issuer by any Stockholder may result in Johnson & Johnson being deemed to acquire beneficial ownership of additional securities of the Issuer. (c) Not applicable. (d) Upon consummation of the Merger, the directors of the Surviving Corporation shall be the existing directors of Merger Sub, until their resignation or removal or until their successors are duly elected and qualified. The existing directors of Merger Sub are Michael Jackson and John T. Crisan. The officers of the Surviving Corporation shall be the existing officers of Merger Sub, until their resignation or removal or until their respective successors are duly elected and qualified. (e) Other than as a result of the Merger described in Item 3 above, not applicable. (f) Not applicable. (g) Upon consummation of the Merger, the Restated Certificate of Incorporation of the Surviving Corporation shall be amended to read in its entirety as set forth in Exhibit 3 to this statement on Schedule 13D, which is incorporated herein by reference, and, as so amended, shall be the Restated Certificate of Incorporation of the Surviving Corporation until thereafter changed or amended. Upon consummation of the Merger, the By-laws of Merger Sub, as in effect immediately prior to the Merger, shall be the By-laws of the Surviving Corporation until thereafter changed or amended. (h) - (i) Upon consummation of the Merger, the Issuer Common Stock will be delisted from The Nasdaq Stock Market Inc. and will become eligible for termination of registration pursuant to Section 12(g)(4) of the Exchange Act. (j) Other than as described above, Johnson & Johnson currently has no plan or proposals which relate to, or may result in, any of the matters listed in Items 4(a) - (i) of Schedule 13D (although Johnson & Johnson reserves the right to develop such plans). ITEM 5. INTEREST IN SECURITIES OF THE ISSUER (a)-(b) As a result of the Stockholder Agreement, Johnson & Johnson may be deemed to be the beneficial owner of the Subject Shares. The Subject Shares constitute approximately 33.0% of the issued and outstanding shares of Issuer 3 Common Stock, based on the Issuer's representation in the Merger Agreement that there were 22,595,758 shares of Issuer Common Stock issued and outstanding at the close of business on January 14, 2003. Pursuant to the Stockholder Agreement, the Stockholders have agreed, among other things, (i) to vote the Subject Shares (and, with respect to certain of the Stockholders, any shares of capital stock of the Issuer acquired by such Stockholder after the date of the Stockholder Agreement and during the term of the Stockholder Agreement) in favor of (a) the adoption of the Merger Agreement, (b) the approval of the Merger and (c) the approval of the other transactions contemplated by the Merger Agreement, (ii) to vote the Subject Shares (and, with respect to certain of the Stockholders, any shares of capital stock of the Issuer acquired by such Stockholder after the date of the Stockholder Agreement and during the term of the Stockholder Agreement) against (a) any merger agreement or merger (other than the Merger Agreement and the Merger) or similar transaction and (b) any proposal or transaction that would impede, frustrate, prevent or nullify the Merger, the Merger Agreement or the other transactions contemplated by the Merger Agreement, (iii) not to sell, transfer, pledge, assign or otherwise dispose of any Subject Shares or enter into any arrangement with respect to the sale, transfer, pledge, assignment or other disposition of such Subject Shares, except to a family member, family trust, or charitable institution in specified circumstances and (iv) not to enter into any voting arrangement, whether by proxy, voting agreement or otherwise, with respect to any Subject Shares. Further, by their execution of the Stockholder Agreement, each Stockholder has irrevocably appointed Johnson & Johnson and Tom Heyman, Michael Jackson, and John T. Crisan, in their capacities as officers or authorized representatives of Johnson & Johnson, and any individual who shall thereafter succeed any of them, and each of them individually, and any individual designated in writing by any of them, as his or her proxy and attorney-in-fact (the "Attorney"). The name of each Stockholder and the number of Subject Shares beneficially owned by each Stockholder are set forth in Schedule A to the Stockholder Agreement, which is attached as Exhibit 2 hereto. In exercising its right to vote the Subject Shares as proxy and attorney-in-fact of the Stockholders, the Attorney's rights are limited to voting the Subject Shares, or granting a consent or approval with respect to the Subject Shares, (i) in favor of approval and adoption of the Merger and the Merger Agreement, (ii) against any Takeover Proposal (as such term is defined in the Merger Agreement) and (iii) against any other proposal or transaction that would impede, frustrate, prevent or nullify the Merger, the Merger Agreement or the other transactions contemplated by the Merger Agreement. The Stockholders may vote the Subject Shares on all other matters. The Stockholder Agreement terminates upon the earlier to occur of (i) such date and time as the Merger shall become effective in accordance with the terms of the Merger Agreement and (ii) the date of termination of the Merger Agreement and (iii) at the option of any Stockholder, the execution or granting of any amendment, modification, change or waiver with respect to the Merger Agreement subsequent to the date of the Stockholder Agreement that results in any decrease in the price to be paid per share for the shares of Issuer Common Stock. (c) Neither Johnson & Johnson nor, to the knowledge of Johnson & Johnson, any person named in Schedule A, has effected any transaction in the Issuer Common Stock during the past 60 days. (d) Not applicable. (e) Not applicable. ITEM 6. CONTRACTS, ARRANGEMENTS, UNDERSTANDINGS OR RELATIONSHIPS WITH RESPECT TO SECURITIES OF THE ISSUER Other than as described in Items 3, 4 and 5 and the agreements incorporated herein by reference and set forth as exhibits hereto, to the knowledge of Johnson & Johnson, there are no contracts, arrangements, understandings or relationships (legal or otherwise) among the persons named in Item 2 and between such persons and any person with respect to any securities of the Issuer, including but not limited to transfer or voting of any of the securities, finder's fees, joint ventures, loan or option arrangements, puts or calls, guarantees of profits, division of profits or loss, or the giving or withholding of proxies. 4 ITEM 7. MATERIALS TO BE FILED AS EXHIBITS The following documents are filed as exhibits: EXHIBIT NUMBER EXHIBIT NAME ------- ------------ 2.1 Agreement and Plan of Merger dated as of January 15, 2003, among Johnson & Johnson, a New Jersey corporation, Longbow Merger Sub, Inc., a Delaware corporation and a wholly owned subsidiary of Johnson & Johnson, and 3-Dimensional Pharmaceuticals, Inc., a Delaware corporation. 2.2 Stockholder Agreement dated as of January 15, 2003, among Johnson & Johnson, a New Jersey corporation, and certain stockholders of 3-Dimensional Pharmaceuticals, Inc., a Delaware corporation. 3.1 Form of Certificate of Incorporation of the Surviving Corporation. 5 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. JOHNSON & JOHNSON, by /s/ Michael H. Ullmann -------------------------- Name: Michael H. Ullmann Title: Secretary Dated: January 27, 2003 6 EXHIBIT INDEX EXHIBIT NUMBER EXHIBIT NAME ------- ------------ 2.1 Agreement and Plan of Merger dated as of January 15, 2003, among Johnson & Johnson, a New Jersey corporation, Longbow Merger Sub, Inc., a Delaware corporation and a wholly owned subsidiary of Johnson & Johnson, and 3-Dimensional Pharmaceuticals, Inc., a Delaware corporation. 2.2 Stockholder Agreement dated as of January 15, 2003, among Johnson & Johnson, a New Jersey corporation, and certain stockholders of 3-Dimensional Pharmaceuticals, Inc., a Delaware corporation. 3.1 Form of Certificate of Incorporation of the Surviving Corporation. 7 SCHEDULE A The following is a list of the directors and executive officers of Johnson & Johnson, setting forth the present principal occupation or employment and the name and principal business of any corporation or other organization in which such employment is conducted for each such person. Unless otherwise indicated, all directors and officers listed below are citizens of the United States. BOARD OF DIRECTORS OF JOHNSON & JOHNSON PRESENT PRINCIPAL NAME POSITION OCCUPATION BUSINESS ADDRESS ---- -------- ----------------- ---------------- Gerard N. Burrow Director President and Chief Johnson & Johnson Executive Officer, Sea One Johnson & Johnson Plaza Research Foundation New Brunswick, NJ 08933 James G. Cullen Director Retired President and Chief Johnson & Johnson Operating Officer, Bell One Johnson & Johnson Plaza Atlantic Corporation New Brunswick, NJ 08933 Robert J. Darretta Director Executive Vice President, Johnson & Johnson Finance and Information One Johnson & Johnson Plaza Management; Member, New Brunswick, NJ 08933 Executive Committee M. Judah Folkman Director Senior Associate in Surgery Johnson & Johnson and Director, Surgical One Johnson & Johnson Plaza Research Laboratory, New Brunswick, NJ 08933 Children's Hospital; Andrus Professor of Pediatric Surgery and Professor of Cell Biology, Harvard Medical School, Department of Surgery Ann D. Jordan Director Former Director, Social Johnson & Johnson Services Department, One Johnson & Johnson Plaza Chicago Lying-In Hospital, New Brunswick, NJ 08933 University of Chicago Medical Center Arnold G. Langbo Director Retired Chairman of the Johnson & Johnson Board and Chief Executive One Johnson & Johnson Plaza Officer, Kellogg Company New Brunswick, NJ 08933 James T. Lenehan Vice Vice Chairman, Board of Johnson & Johnson Chairman, Directors; President; One Johnson & Johnson Plaza Board of Member, Executive New Brunswick, NJ 08933 Directors and Committee Director Leo F. Mullin Director Chairman and Chief Johnson & Johnson Executive Officer, Delta Air One Johnson & Johnson Plaza Lines, Inc. New Brunswick, NJ 08933 David Satcher Director Director, National Center for Johnson & Johnson Primary Care One Johnson & Johnson Plaza New Brunswick, NJ 08933 Henry B. Schacht Director Chairman of the Board, Johnson & Johnson Lucent Technologies Inc. One Johnson & Johnson Plaza New Brunswick, NJ 08933 Maxine F. Singer Director President of the Carnegie Johnson & Johnson Institution of Washington One Johnson & Johnson Plaza New Brunswick, NJ 08933 William C. Weldon Chairman, Chairman, Board of Directors; Johnson & Johnson Board of Chairman, Executive One Johnson & Johnson Plaza Directors Committee New Brunswick, NJ 08933 8 PRESENT PRINCIPAL NAME POSITION OCCUPATION BUSINESS ADDRESS ---- -------- ----------------- ---------------- Robert N. Wilson Senior Vice Senior Vice Chairman, Board Johnson & Johnson Chairman, of Directors One Johnson & Johnson Plaza Board of New Brunswick, NJ 08933 Directors and Director 9 SCHEDULE A EXECUTIVE OFFICERS OF JOHNSON & JOHNSON NAME POSITION Robert J. Darretta Member, Executive Committee; Member, Board of Directors; Executive Vice President, Finance and Information Management; Chief Financial Officer Russell C. Deyo Member, Executive Committee; Vice President, Administration Michael J. Dormer Member, Executive Committee; Worldwide Citizenship: Chairman, Medical Devices Group United Kingdom Roger S. Fine Member, Executive Committee; Vice President, General Counsel Colleen A. Goggins Member, Executive Committee; Worldwide Chairman, Consumer & Personal Care Group JoAnn Heffernan Heisen Member, Executive Committee; Vice President, Chief Information Officer James T. Lenehan Vice Chairman, Board of Directors; Member, Executive Committee; President Brian D. Perkins Member, Executive Committee; Worldwide Chairman, Consumer Pharmaceuticals & Nutritionals Group Per A. Peterson, M.D., Ph.D. Member, Executive Committee; Chairman, Research & Development Pharmaceuticals Group Christine A. Poon Member, Executive Committee; Worldwide Chairman, Pharmaceuticals Group William C. Weldon Chairman, Board of Directors; Chief Executive Officer; Chairman, Executive Committee 10