NPS PHARMACEUTICALS INC
SC 13D/A, 1998-02-27
BIOLOGICAL PRODUCTS, (NO DIAGNOSTIC SUBSTANCES)
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<PAGE>
 
                       SECURITIES AND EXCHANGE COMMISSION
                             WASHINGTON, DC  20549
                                ---------------

                                  SCHEDULE 13D
                                 (RULE 13d-101)

                   UNDER THE SECURITIES EXCHANGE ACT OF 1934
                              (AMENDMENT NO. 2)/1/


                           NPS PHARMACEUTICALS, INC.
                           -------------------------
                                (Name of Issuer)

                                  Common Stock
                                  ------------
                         (Title of Class of Securities)

                                  62936 P 103
                                  -----------
                                 (CUSIP Number)

                                   Hope Flack
                               BVF Partners L.P.
                       333 West Wacker Drive, Suite 1600
                            Chicago, Illinois  60606
                                 (312) 263-7777
                 --------------------------------------------
                (Name, Address and Telephone Number of Person 
               Authorized to Receive Notices and Communications)

                                January 30, 1998
                                ----------------
            (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 which is the subject of this Schedule 13D, and is filing
this schedule because of Rule 13d-1(b)(3) or (4), check the following box [ ].

          Note: Six copies of this statement, including all exhibits, should be
     filed with the Commission.  See Rule 13d-1(a) for other parties to whom
     copies are to be sent.

                         (Continued on following pages)

                              (Page 1 of 7 Pages)

- ---------------------
  /1/    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 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).
<PAGE>
 
                                  SCHEDULE 13D

- -----------------------------                          -------------------------
CUSIP NO.  62936 P 103                                 Page   2   of   7   Pages
- -----------------------------                          -------------------------

- --------------------------------------------------------------------------------
1. NAME OF REPORTING PERSONS
   S.S. OR I.R.S. IDENTIFICATION NOS. OF ABOVE PERSONS

     Biotechnology Value Fund, L.P.
- --------------------------------------------------------------------------------
2. CHECK THE APPROPRIATE BOX IF A MEMBER OF A GROUP*                   (a) [X]
                                                                       (b) [_]
     
- --------------------------------------------------------------------------------
3. SEC USE ONLY

- --------------------------------------------------------------------------------
4. SOURCE OF FUNDS*
     WC
- --------------------------------------------------------------------------------
5. CHECK BOX IF DISCLOSURE OF LEGAL PROCEEDING IS REQUIRED PURSUANT TO ITEMS
   2(d) OR 2(e)                                                            [_]

- --------------------------------------------------------------------------------
6. CITIZENSHIP OR PLACE OF ORGANIZATION
     Delaware
- --------------------------------------------------------------------------------
              7.  SOLE VOTING POWER
  NUMBER OF         -0-
   SHARES     ------------------------------------------------------------------
BENEFICIALLY  8.  SHARED VOTING POWER
  OWNED BY          569,900
 REPORTING    ------------------------------------------------------------------
  PERSON      9.  SOLE DISPOSITIVE POWER
   WITH             -0-
              ------------------------------------------------------------------
              10. SHARED DISPOSITIVE POWER
                    569,900
- --------------------------------------------------------------------------------
11. AGGREGATE AMOUNT BENEFICIALLY OWNED BY EACH REPORTING PERSON
      569,900
- --------------------------------------------------------------------------------
12. CHECK BOX IF THE AGGREGATE AMOUNT IN ROW 11 EXCLUDES CERTAIN SHARES* 
                                                                           [_]

- --------------------------------------------------------------------------------
13. PERCENT OF CLASS REPRESENTED BY AMOUNT IN ROW 11
      4.7%
- --------------------------------------------------------------------------------
14. TYPE OF REPORTING PERSON*
      PN
- --------------------------------------------------------------------------------
                        *SEE INSTRUCTIONS BEFORE FILLING OUT!
        
        
<PAGE>
 
                                  SCHEDULE 13D

- -----------------------------                          -------------------------
CUSIP NO.  62936 P 103                                 Page   3   of   7   Pages
- -----------------------------                          -------------------------

- --------------------------------------------------------------------------------
1. NAME OF REPORTING PERSONS
   S.S. OR I.R.S. IDENTIFICATION NOS. OF ABOVE PERSONS

      BVF Partners L.P.
- --------------------------------------------------------------------------------
2. CHECK THE APPROPRIATE BOX IF A MEMBER OF A GROUP*                   (a) [X]
                                                                       (b) [_]

- --------------------------------------------------------------------------------
3. SEC USE ONLY

- --------------------------------------------------------------------------------
4. SOURCE OF FUNDS*
      OO
- --------------------------------------------------------------------------------
5. CHECK BOX IF DISCLOSURE OF LEGAL PROCEEDING IS REQUIRED PURSUANT TO ITEMS
   2(d) OR 2(e)                                                            [_]

- --------------------------------------------------------------------------------
6. CITIZENSHIP OR PLACE OF ORGANIZATION
      Delaware
- --------------------------------------------------------------------------------
              7.  SOLE VOTING POWER
  NUMBER OF         -0-
   SHARES     ------------------------------------------------------------------
BENEFICIALLY  8.  SHARED VOTING POWER
  OWNED BY          1,141,800
 REPORTING    ------------------------------------------------------------------
  PERSON      9.  SOLE DISPOSITIVE POWER
   WITH             -0-
              ------------------------------------------------------------------
              10. SHARED DISPOSITIVE POWER
                    1,141,800
- --------------------------------------------------------------------------------
11. AGGREGATE AMOUNT BENEFICIALLY OWNED BY EACH REPORTING PERSON
        1,141,800
- --------------------------------------------------------------------------------
12. CHECK BOX IF THE AGGREGATE AMOUNT IN ROW 11 EXCLUDES CERTAIN SHARES* 
                                                                           [_]

- --------------------------------------------------------------------------------
13. PERCENT OF CLASS REPRESENTED BY AMOUNT IN ROW 11
        9.5%
- --------------------------------------------------------------------------------
14. TYPE OF REPORTING PERSON*
        PN
- --------------------------------------------------------------------------------
                        *SEE INSTRUCTIONS BEFORE FILLING OUT!
<PAGE>
 
                                  SCHEDULE 13D

- -----------------------------                          -------------------------
CUSIP NO.  62936 P 103                                 Page   4   of   7   Pages
- -----------------------------                          -------------------------

- --------------------------------------------------------------------------------
1. NAME OF REPORTING PERSONS
   S.S. OR I.R.S. IDENTIFICATION NOS. OF ABOVE PERSONS

      BVF Inc.
- --------------------------------------------------------------------------------
2. CHECK THE APPROPRIATE BOX IF A MEMBER OF A GROUP*                   (a) [X]
                                                                       (b) [_]
    
- --------------------------------------------------------------------------------
3. SEC USE ONLY

- --------------------------------------------------------------------------------
4. SOURCE OF FUNDS*
      WC, OO
- --------------------------------------------------------------------------------
5. CHECK BOX IF DISCLOSURE OF LEGAL PROCEEDING IS REQUIRED PURSUANT TO ITEMS
   2(d) OR 2(e)                                                            [_]

- --------------------------------------------------------------------------------
6. CITIZENSHIP OR PLACE OF ORGANIZATION
      Delaware
- --------------------------------------------------------------------------------
              7.  SOLE VOTING POWER
  NUMBER OF         -0-
   SHARES     ------------------------------------------------------------------
BENEFICIALLY  8.  SHARED VOTING POWER
  OWNED BY          1,141,800
 REPORTING    ------------------------------------------------------------------
  PERSON      9.  SOLE DISPOSITIVE POWER
   WITH             -0-
              ------------------------------------------------------------------
              10. SHARED DISPOSITIVE POWER
                    1,141,800
- --------------------------------------------------------------------------------
11. AGGREGATE AMOUNT BENEFICIALLY OWNED BY EACH REPORTING PERSON
        1,141,800
- --------------------------------------------------------------------------------
12. CHECK BOX IF THE AGGREGATE AMOUNT IN ROW 11 EXCLUDES CERTAIN SHARES* 
                                                                           [_]

- --------------------------------------------------------------------------------
13. PERCENT OF CLASS REPRESENTED BY AMOUNT IN ROW 11
        9.5%
- --------------------------------------------------------------------------------
14. TYPE OF REPORTING PERSON*
        IA, CO
- --------------------------------------------------------------------------------
                        *SEE INSTRUCTIONS BEFORE FILLING OUT!
<PAGE>
 
- -----------------------------                          -------------------------
CUSIP NO.  62936 P 103            SCHEDULE 13D         Page   5   of   7   Pages
- -----------------------------                          -------------------------

   This Amendment No. 2 (this "Amendment") relates to the Statement on Schedule
13D, dated April 25, 1997, as amended by Amendment No. 1, dated December 1, 1997
(as so amended, the "Statement"), filed with the Securities and Exchange
Commission on behalf of Biotechnology Value Fund, L.P., a Delaware limited
partnership ("BVF"), BVF Partners L.P., a Delaware limited partnership
("Partners"), and BVF Inc., a Delaware corporation ("BVF Inc." and, together
with BVF and Partners, the "Reporting Persons") with respect to the Common
Stock, par value $0.001 per share (the "Stock"), of NPS Pharmaceuticals, Inc., a
Delaware corporation ("NPS"). The principal executive office of NPS is located
at 420 Chipeta Way, Suite 240, Salt Lake City, UT 84108-1256.


     Item 3 is hereby amended to read in its entirety as follows:

ITEM 3.   SOURCE AND AMOUNT OF FUNDS OR OTHER CONSIDERATION.

     Since December 26, 1997, Partners, in its capacity as general partner of
BVF, has purchased on behalf of such limited partnership an aggregate number of
40,500 shares of the Stock for an aggregate consideration of $310,562.50,
utilizing funds provided by BVF from its working capital pursuant to the terms
of its limited partnership agreement with Partners. In addition, Partners, in
its capacity as investment manager with respect to certain managed accounts, has
purchased on behalf of such managed accounts an aggregate number of 102,400
shares of the Stock for an aggregate consideration of $792,514.32 utilizing
funds under management by Partners pursuant to investment management agreements
between Partners and such managed accounts.
 
     Item 5 is hereby amended to read in its entirety as follows:

ITEM 5.   INTEREST IN SECURITIES OF THE ISSUER.

     (a) BVF beneficially owns 569,900 shares of the Stock, Partners
beneficially owns 1,141,800 shares of the Stock, and BVF Inc. beneficially owns
1,141,800 shares of the Stock, approximately 4.7%, 9.5% and 9.5%, respectively,
of the aggregate number of shares outstanding as of September 30, 1997 (as
reported in NPS's most recent quarterly statement on Form 10-Q).

     (b) BVF shares voting and dispositive power over the 569,900 shares of the
Stock it beneficially owns with Partners.  Partners and BVF Inc. share voting
and dispositive power over the 1,141,800 shares of the Stock they beneficially
own with, in addition to BVF, the managed accounts on whose behalf Partners, as
investment manager, purchased such shares. The managed accounts on whose behalf
Partners owns shares of the Stock are Investment 10 L.L.C., an Illinois limited
liability company ("ILL10"), Palamundo, L.D.C., a limited duration company
organized under the laws of the Cayman Islands ("Palamundo"), ZPG 
<PAGE>
 
- -----------------------------                          -------------------------
CUSIP NO.  62936 P 103            SCHEDULE 13D         Page   6   of   7   Pages
- -----------------------------                          -------------------------

Securities, L.L.C., a New York limited liability company ("ZPG") and
Biotechnology Value Fund, Ltd., a Cayman Islands Corporation ("BVF Ltd.").
ILL10, Palamundo, ZPG and BVF Ltd. are collectively referred to herein as the
"Accounts." The Accounts specialize in holding biotechnology stocks for
investment purposes and the business address of each is c/o BVF Partners L.P.,
333 West Wacker Drive, Suite 1600, Chicago, Illinois 60606.

     (c) Exhibit B attached hereto contains information as to all transactions
in the Stock by the Reporting Persons during the past 60 days.  All such
transactions were made for cash in open market, over-the-counter transactions.
No other transactions in the Stock have been effected by the Reporting Persons
during the past 60 days.

     (d) The Accounts are entitled to receive dividends and any sale proceeds
with respect to the Stock in proportion to their respective ownership interests
therein.

     Item 7 is hereby amended to read in its entirety as follows:

ITEM 7.   MATERIAL TO BE FILED AS EXHIBITS.

     Exhibit A - Agreement Regarding Joint Filing

     Exhibit B - Transactions in the Stock by the Reporting Persons during the
                 last 60 days.
<PAGE>
 
- -----------------------------                          -------------------------
CUSIP NO.  62936 P 103            SCHEDULE 13D         Page   7   of   7   Pages
- -----------------------------                          -------------------------

     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.

Dated:  February 27, 1998

     BIOTECHNOLOGY VALUE FUND, L.P.

     By:  BVF Partners L.P., its general partner

          By:  BVF Inc., its general partner


               By:  /s/ Mark N. Lampert
                    -------------------
                    Mark N. Lampert
                    President

     BVF PARTNERS L.P.

     By:  BVF Inc., its general partner


          By:  /s/ Mark N. Lampert
               -------------------
               Mark N. Lampert
               President

     BVF INC.


     By:  /s/ Mark N. Lampert
          -------------------
          Mark N. Lampert
          President

<PAGE>
 
                                   EXHIBIT A

                        AGREEMENT REGARDING JOINT FILING
                        --------------------------------


     The undersigned, Biotechnology Value Fund, L.P., a Delaware limited
partnership, and BVF Partners L.P., a Delaware limited partnership, and BVF
Inc., a Delaware corporation, hereby agree and acknowledge that the Amendment
containing the information required by Schedule 13D, to which this Agreement is
attached as an exhibit, is filed on behalf of each of them.  The undersigned
further agree that any further amendments or supplements thereto shall also be
filed on behalf of each of them.

Dated:  February 27, 1998

     BIOTECHNOLOGY VALUE FUND, L.P.

     By:  BVF Partners L.P., its general partner

          By:  BVF Inc., its general partner


               By:  /s/ Mark N. Lampert
                    -------------------
                    Mark N. Lampert
                    President

     BVF PARTNERS L.P.

     By:  BVF Inc., its general partner


          By:  /s/ Mark N. Lampert
               -------------------
               Mark N. Lampert
               President

     BVF INC.


     By:  /s/ Mark N. Lampert
          -------------------
          Mark N. Lampert
          President

<PAGE>
 
                                   EXHIBIT B

               TRANSACTIONS IN THE STOCK BY THE REPORTING PERSONS
               --------------------------------------------------
                            DURING THE LAST 60 DAYS
                            -----------------------

<TABLE>
<CAPTION>
Settlement       By          For the     Quantity     Price     Type of Trade   Broker
  Date       -----------   Account of    --------      per      -------------   ------
- ----------                 -----------                Share
                                                    ---------
======================================================================================
<S>          <C>           <C>             <C>        <C>       <C>             <C>
  12/26/97   Partners      BVF             26,500     $7.6250   Purchase        OPCO
- --------------------------------------------------------------------------------------
  12/26/97   Partners      ILL10            3,750     $7.6250   Purchase        OPCO
- --------------------------------------------------------------------------------------
  12/26/97   Partners      PAL              2,250     $7.6250   Purchase        OPCO
- --------------------------------------------------------------------------------------
  12/26/97   Partners      ZPG              2,000     $7.6250   Purchase        OPCO
- --------------------------------------------------------------------------------------
  12/26/97   Partners      BVF Ltd.        15,500     $7.6250   Purchase        OPCO
- --------------------------------------------------------------------------------------
  01/06/98   Partners      BVF Ltd.         4,600     $7.5761   Purchase        INET
- --------------------------------------------------------------------------------------
  01/08/98   Partners      BVF Ltd.         3,800     $7.6447   Purchase        INET
- --------------------------------------------------------------------------------------
  01/20/98   Partners      BVF Ltd.         4,000     $8.0000   Purchase        INET
- --------------------------------------------------------------------------------------
  01/21/98   Partners      BVF Ltd.        50,000     $7.7750   Purchase        VECT
- --------------------------------------------------------------------------------------
  01/21/98   Partners      BVF Ltd.         3,500     $7.8214   Purchase        INET
- --------------------------------------------------------------------------------------
  01/29/98   Partners      BVF Ltd.         1,000     $7.7500   Purchase        INET
- --------------------------------------------------------------------------------------
  01/30/98   Partners      BVF             14,000     $7.7500   Purchase        VECT
- --------------------------------------------------------------------------------------
  01/30/98   Partners      PAL              2,000     $7.7500   Purchase        VECT
- --------------------------------------------------------------------------------------
  01/30/98   Partners      BVF Ltd.        10,000     $7.7500   Purchase        VECT
- --------------------------------------------------------------------------------------
</TABLE>

     OPCO   =      Oppenheimer & Co., Inc.
     INET   =      Instinet
     VECT   =      Vector Securities
 


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