AGOURON PHARMACEUTICALS INC
DEF 14A, 1997-09-25
PHARMACEUTICAL PREPARATIONS
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                                 UNITED STATES
                       SECURITIES AND EXCHANGE COMMISSION
                             Washington, D.C. 20549


                            SCHEDULE 14A INFORMATION
  Proxy Statement Pursuant to Section 14(a) of Securities Exchange Act of 1934

Filed by the Registrant [X]
Filed by a Party other than the Registrant [ ]
Check the appropriate box:

  / /  Preliminary Proxy Statement
  / /  Confidential, for Use of the Commission Only (as permitted by Rule 
       14a-6(e)(2))
  /X/  Definitive Proxy Statement
  / /  Definitive Additional Materials
  / /  Soliciting Material Pursuant to ss.240.14a-11(c) or ss.240.14a-12

                          Agouron Pharmaceuticals, Inc.
                          10350 North Torrey Pines Road
                           La Jolla, California 92037
                (Name of Registrant as Specified in its Charter)

                ________________________________________________
       (Name of Person(s) Filing Proxy Statement if other than Registrant)

Payment of Filing Fee: (Check the Appropriate Box)

  /X/  No fee required.
  / /  Fee computed on the table below per Exchange  Act Rules 14a-6(i)(4) 
       and 0-11.

       1. Title of each class of securities to which transaction applies: _____

       2. Aggregate number of securities to which transaction applies:    _____

       3. Per  unit  price  or other  underlying  value  of  transaction
          computed  pursuant  to  Exchange  Act Rule 0-11 (set forth the
          amount on which the filing fee is calculated  and state how it
          was determined): _____

       4. Proposed maximum aggregate value of transaction:  _____
 
       5. Total fee paid:  _____

  / /  Fee paid previously with preliminary materials.

  / /  Check box if any part of the fee is offset as provided by Exchange  Act
       Rule  0-11(a)(2)  and identify the filing for which the  offsetting fee
       was paid  previously.  Identify  the  previous  filing by  registration
       statement number, or the Form or Schedule and the date of its filing.

       1. Amount Previously Paid:   ______

       2. Form, Schedule or Registration Statement No.:  ______

       3. Filing Party:     ______

       4. Date Filed:       ______


<PAGE>

                          AGOURON PHARMACEUTICALS, INC.
                          10350 North Torrey Pines Road
                         La Jolla, California 92037-1020

                    NOTICE OF ANNUAL MEETING OF SHAREHOLDERS
                         TO BE HELD ON NOVEMBER 6, 1997

     The Annual Meeting of Shareholders  ("Meeting") of Agouron Pharmaceuticals,
Inc.,  a California  corporation  (the  "Company")  will be held at the Sheraton
Grande Torrey Pines, 10950 North Torrey Pines Road, La Jolla,  California 92037,
on Thursday, November 6, 1997, at 10:00 a.m. for the following purposes:

     1. To elect nine  directors of the  Company,  all of whom shall serve until
the  1998  Annual   Meeting  of   Shareholders   (and  until  the  election  and
qualification of their successors);

     2. To ratify the selection of independent accountants; and

     3. To  consider  and act  upon  such  other  business  as may  properly  be
presented to the Meeting or any adjournments or postponements thereof.

     Only  shareholders  of record as of the close of business on September  23,
1997  will  be  entitled  to  notice  of  and to  vote  at  the  Meeting  or any
adjournments or postponements  thereof. A list of shareholders  entitled to vote
at the Meeting will be available  for  inspection  at the offices of the Company
for 10 days before the Meeting.

     All  shareholders  are  cordially  invited to attend the Meeting in person.
Regardless  of whether you plan to attend the Meeting,  please sign and date the
enclosed Proxy and return it promptly in the accompanying envelope,  postage for
which has been  provided if mailed in the United  States.  The prompt  return of
Proxies  will  ensure a quorum  and save the  Company  the  expense  of  further
solicitation.  Any shareholder  returning the enclosed Proxy may revoke it prior
to its  exercise  by  voting  in person  at the  Meeting  or by filing  with the
Secretary of the Company a written revocation or a duly executed Proxy bearing a
later date.


                                              By Order of the Board of Directors

                                              /s/ Gary E. Friedman


                                              Gary E. Friedman
                                              Secretary


La Jolla, California
September 26, 1997



<PAGE>





                          AGOURON PHARMACEUTICALS, INC.
                          10350 North Torrey Pines Road
                         La Jolla, California 92037-1020

                                 PROXY STATEMENT

                         ANNUAL MEETING OF SHAREHOLDERS
                         TO BE HELD ON NOVEMBER 6, 1997


                               GENERAL INFORMATION

     This Proxy  Statement is furnished in connection  with the  solicitation of
Proxies  by and on  behalf  of the  Board  of  Directors  ("Board")  of  Agouron
Pharmaceuticals,  Inc., a California corporation (the "Company"), for use at the
Company's Annual Meeting of Shareholders for the fiscal year ended June 30, 1997
(the  "Meeting") to be held at the Sheraton  Grande  Torrey  Pines,  10950 North
Torrey Pines Road, La Jolla, California 92037, on Thursday,  November 6, 1997 at
10:00 a.m., and at any adjournments or postponements  thereof,  for the purposes
set forth in the preceding  notice.  It is anticipated that this Proxy Statement
and the  accompanying  Proxy will be mailed to the Company's  shareholders on or
about September 26, 1997.

     Any  shareholder  returning  the enclosed  Proxy may revoke it prior to its
exercise by voting in person at the Meeting or by filing with the  Secretary  of
the Company a written revocation or a duly executed Proxy bearing a later date.

     All shares  represented  by valid Proxies will be voted in accordance  with
the directions  specified  thereon and otherwise in accordance with the judgment
of the proxyholders.  Any duly executed Proxy on which no direction is specified
will be voted for the election of the nominees  named herein to the Board and in
favor of Proposal 2 described in the Notice of Meeting and this Proxy Statement.

     The expense of printing  and mailing  Proxy  material  will be borne by the
Company. In addition to the solicitation of Proxies by mail, solicitation may be
made by  certain  directors,  officers  or other  employees  of the  Company  by
telephone, telegraph, facsimile or in person. No additional compensation will be
paid to such persons for such  solicitation.  However,  the Company will request
brokers, nominees, fiduciaries, custodians and others to forward Proxy materials
to the beneficial  owners of the Company's shares and the Company will reimburse
such  brokers  or other  persons  for their  reasonable  out-of-pocket  expenses
incurred in connection with forwarding such materials.


                      SHARES OUTSTANDING AND VOTING RIGHTS

     Only  shareholders  of record as of the close of business on September  23,
1997  (the  "Record  Date")  will be  entitled  to vote  at the  Meeting.  As of
September 12, 1997, there were outstanding 30,235,906 shares of common stock.

     Holders of common  stock are  entitled to one vote per share on all matters
brought  before the Meeting and to cumulate  votes for the  election of the nine
directors.  Therefore, in voting for directors, each outstanding share of common
stock  is  entitled  to nine  votes  which  may be cast  for  one  candidate  or
distributed in any manner among the nominees for director. However, the right to
cumulate votes in favor of one or more candidates may not be exercised until the
candidate or candidates have been nominated and the shareholder has given notice
at the Meeting of the intention to cumulate votes.

     The persons  authorized to vote shares  represented by executed Proxies for
common  stock in the  enclosed  form (if  authority  to vote for the election of
directors  is not  withheld)  will have full  discretion  and  authority to vote
cumulatively  and to allocate votes among any or all of the nominees as they may
determine or, if authority to vote for a specified  candidate or candidates  had
been  withheld,  among those  candidates for whom authority to vote has not been
withheld.

     The  required  quorum for the  Meeting  shall  consist of a majority of the
outstanding  shares of common  stock which are  entitled to vote in person or by
proxy at the Meeting. Assuming that a quorum is present at the Meeting, the nine
persons  receiving the highest number of votes will be elected to the Board. The
required  vote for the  approval of other  business  matters is set forth in the
discussion of such matters.


                                       1
<PAGE>



                               BOARD OF DIRECTORS

     Under the bylaws of the Company,  the number of directors is to be not less
than six nor more than eleven,  with the actual  number to be fixed from time to
time by  resolution  of the  Board.  The Board  has fixed at nine the  number of
directors to be elected at the 1997 Annual Meeting of Shareholders.

     Nine  directors  are to be elected at the Meeting,  each to serve until the
next Annual Meeting of Shareholders  and until their  respective  successors are
elected or appointed. Unless authority to vote for all directors is withheld, it
is intended that the shares  represented by the enclosed Proxy will be voted for
the election of the nominees named. In the event any of them shall become unable
or unwilling to accept  nomination or election,  the shares  represented  by the
enclosed  Proxy will be voted for the election of such other person as the Board
may  recommend in his or her place.  The Board has no reason to believe that any
such nominee will be unable or unwilling to serve.


                              ELECTION OF DIRECTORS
                           (Item 1 on the Proxy Card)

    The nine nominees for election as  directors, all of whom are members of the
present Board, are Peter Johnson, Gary E. Friedman, John N. Abelson, Patricia M.
Cloherty, A.E. Cohen, Michael E. Herman, Irving S. Johnson,  Antonie T. Knoppers
and Melvin I.  Simon.  Their  terms will last until the 1998  Annual  Meeting of
Shareholders.  Certain information  concerning the nominees for directors is set
forth below.

     The Board  recommends that you vote FOR the nominees for directors,  as set
forth in Item 1 on the Proxy Card.

Nominees for Election as Directors

           Name                                 Age        Position

           Peter Johnson                         52        President, Chief
                                                           Executive Officer and
                                                           Director
           Gary E. Friedman                      50        Corporate Vice 
                                                           President, General 
                                                           Counsel, Secretary
                                                           and Director
           John N. Abelson, Ph.D.(1)             58        Director
           Patricia M. Cloherty(2)               55        Director
           A.E. Cohen(1)                         61        Director
           Michael E. Herman(1)                  56        Director
           Irving S. Johnson, Ph.D.              72        Director
           Antonie T. Knoppers, M.D., Ph.D.(2)   82        Director
           Melvin I. Simon, Ph.D.(2)             60        Director

- -----------------------
(1)  Member of Directors Compensation Committee

(2)  Member of Audit Committee



                                       2
<PAGE>


     Peter  Johnson,  a founder of the Company,  has served as a director and as
president  and chief  executive  officer of the Company  since its  inception in
1984.  Through  1989,  Mr.  Johnson  held  various  positions  with The  Agouron
Institute,  including executive  director.  Mr. Johnson received a M.A. from the
University of California, San Diego.

     Gary E. Friedman,  a founder of the Company, has served as a director since
its  inception,  as the  secretary  of the  Company  since  May 1986 and as vice
president and general  counsel since December  1991. In June 1997, Mr.  Friedman
was promoted to corporate vice president.  Previously,  from 1982 until December
1991, Mr. Friedman was a principal of the law firm of Friedman,  Jay & Cramer, a
Professional  Corporation.  Mr. Friedman is a California Certified Specialist in
Taxation.  Mr.  Friedman  received a J.D. and a M.B.A.  from the  University  of
California, Berkeley and a L.L.M. in taxation from the University of San Diego.

     John N. Abelson,  a founder of the Company,  has served as a director since
its inception.  Dr. Abelson, a molecular biologist,  is a member of the National
Academy of Sciences. Since 1982, Dr. Abelson has been a member of the faculty of
the Division of Biology at the California  Institute of Technology  where,  from
October 1989 until June 1995, he served as chairman. Previously, Dr. Abelson was
a member of the faculty in the  Department  of  Chemistry at the  University  of
California, San Diego. Dr. Abelson received a Ph.D. in biophysics from The Johns
Hopkins University and was a postdoctoral  fellow at the Laboratory of Molecular
Biology in  Cambridge,  England.  Dr.  Abelson  also serves as a director of The
Agouron Institute.

     Patricia M. Cloherty  joined the Board in December  1988.  Since 1970,  Ms.
Cloherty has been associated with Patricof & Co. Ventures,  Inc.  (formerly Alan
Patricof  Associates,  Inc.), a New York venture capital firm ("Patricof"),  and
has been a general  partner of its funds  since 1973.  In 1993,  she was elected
president of Patricof.  Ms. Cloherty also served as deputy administrator for the
U.S. Small Business Administration in 1977 and 1978. Ms. Cloherty also serves on
the board of directors of several private companies.

     A.E.  Cohen  joined the Board in March 1992.  Mr.  Cohen is an  independent
management consultant. From 1957 until his retirement in January 1992, Mr. Cohen
held various positions at Merck & Co., Inc., including senior vice president and
president  of the Merck Sharp & Dohme  International  Division.  Currently,  Mr.
Cohen is the  chairman of the board of  Neurobiological  Technologies,  Inc. and
Vasomedical, Inc., and is a member of the board of directors of Akzo Nobel N.V.,
Teva Pharmaceutical  Industries Ltd., Vion  Pharmaceuticals,  Inc., Smith Barney
(Mutual Funds),  and BlueStone Capital  Partners,  L.P., all of which are public
companies.  Mr.  Cohen also serves as a  consultant  to  MeesPierson  Inc.,  The
Population  Council and Chugai  Pharmaceutical  Co. Ltd., Tokyo ("Chugai"),  and
serves as chairman of the board of Chugai's U.S. subsidiary companies.

     Michael E. Herman joined the Board in October 1992. Mr. Herman is a private
investor,  as well as president and chief  operating  officer of the Kansas City
Royals Baseball Team. From October 1974 until his retirement in 1990, Mr. Herman
held  various  positions  at  Marion  Laboratories,  Inc.  (now  Hoechst  Marion
Roussel),  including  executive  vice  president  and chief  financial  officer.
Currently,  Mr. Herman serves as chairman of the finance  committee of the Ewing
Marion Kauffman  Foundation,  a private foundation located in Kansas City where,
from 1985 through 1990, he was the president and chief  operating  officer.  Mr.
Herman  is also a  member  of the  board of  directors  of  Cerner  Corporation,
Seafield Capital and SLH  Corporation,  all of which are public  companies,  and
serves on the board of directors of several private companies.

     Irving  S.  Johnson  joined  the  Board  in May  1989.  Dr.  Johnson  is an
independent  consultant in  biomedical  research  working with numerous  private
companies.  From 1953 until his  retirement in November  1988,  Dr. Johnson held
various positions at Eli Lilly and Company, including vice president of research
from 1973 until  1988.  Dr.  Johnson  also served on several  committees  of the
National  Academy of  Sciences,  the  Office of  Technology  Assessment  and the
National  Institutes  of  Health.  Currently,  he is a  member  of the  board of
directors  of  Allelix   Biopharmaceuticals   Inc.  and  Ligand  Pharmaceuticals
Incorporated,  and is on the scientific advisory board of ELAN Corporation,  all
of which are public  companies.  Dr. Johnson  received a Ph.D. in  developmental
biology from the University of Kansas.

     Antonie  T.  Knoppers  joined the Board in July 1991.  Dr.  Knoppers  is an
independent management  consultant.  From 1952 until his retirement in 1975, Dr.
Knoppers held various positions at Merck & Co., Inc., including vice chairman of
the board and president and chief operating officer. Dr. Knoppers is a member of
the board of directors of Centocor,  Inc., a public  biotechnology  company.  In
addition,  he is a former  chairman  of the U.S.  Council  of the  International
Chamber  of  Commerce  and  a  member  of  the  advisory  board  of  PaineWebber
Development Corporation, an affiliate of PaineWebber Incorporated.  Dr. Knoppers
received a M.D. from the University of Amsterdam and a Ph.D.
from the University of Leiden, The Netherlands.

                                       3
<PAGE>



     Melvin I. Simon,  a founder of the Company,  has served as a director since
its inception.  Dr. Simon, a molecular  geneticist,  is a member of the National
Academy of Sciences. Currently, Dr. Simon is chairman of the Division of Biology
at the  California  Institute  of  Technology  where he has been a member of the
faculty  since 1982.  Previously,  Dr.  Simon was a member of the faculty in the
Department of Biology at the  University  of  California,  San Diego.  Dr. Simon
received a Ph.D. in biochemistry from Brandeis University. Dr. Simon also serves
as a director of The Agouron Institute.

Committees and Meetings of the Board

     The Company has a Directors  Compensation Committee and an Audit Committee.
The Company does not have a Nominating  Committee.  During the fiscal year ended
June 30, 1997, the Board held nine meetings.

     During the fiscal year ended June 30, 1997,  members of the Audit Committee
consisted of Ms.  Cloherty,  Chairperson,  Dr. Knoppers and Dr. Simon. The Audit
Committee oversees the Company's  accounting and financial  reporting  policies,
makes  recommendations  to the Board  regarding the  appointment  of independent
accountants,  reviews with the independent accountants the accounting principles
and  practices  followed by the Company and the adequacy  thereof,  approves the
Company's  annual  audit  and  financial  results  and any  material  change  in
accounting principles,  policies and procedures and makes recommendations to the
Board with regard to any of the preceding. The Audit Committee held two meetings
in the fiscal year ended June 30, 1997.

     During  the  fiscal  year  ended  June 30 1997,  members  of the  Directors
Compensation  Committee consisted of Mr. Herman,  Chairman, Dr. Abelson, and Mr.
Cohen.  The  Directors  Compensation  Committee  recommends  to  the  Board  the
Company's overall compensation and the individual  compensation elements for the
Company's executive officers and directors. The Directors Compensation Committee
does not approve  grants of stock  options to executive  officers and  directors
under the Company's  stock option plans.  The Directors  Compensation  Committee
held two  meetings in the fiscal year ended June 30, 1997.  During  fiscal 1997,
the full Board was  responsible  for  approving  grants of options to  executive
officers and directors.

     No incumbent director attended fewer than 75% of the aggregate of the Board
and Committee meetings in which such director was entitled to participate.



                                       4
<PAGE>


         SECURITY OWNERSHIP OF CERTAIN BENEFICIAL OWNERS AND MANAGEMENT

     The  following  table sets  forth  information  as of  September  12,  1997
relating to the beneficial  ownership of the Company's  common stock by (i) each
person known by the Company to beneficially  own more than 5% of the outstanding
shares of the Company's  common  stock,  (ii) each  director,  (iii) each of the
executive  officers named in the Summary  Compensation Table below, and (iv) all
executive officers and directors as a group.


<TABLE>
<CAPTION>
                                                                                  Beneficial Ownership(1)
                                                                         Number of                  Percentage of
         Beneficial Owner                                                Shares(9)                      Total
- ------------------------------                                        ---------------                 ---------
      <S>                                                              <C>                               <C>
      Ark Asset Management Co., Inc.                                   2,750,000                         9.10%
        One New York Plaza, 29th Floor
        New York, New York 10004
     Peter Johnson(2)                                                    680,200                         2.21%
     Gary E. Friedman(2) Family Trust(8)                                 273,500                         *
     John N. Abelson(2)(3)(6)                                            117,776                         *
     Patricia M. Cloherty(2)                                              20,992                         *
     A. E. Cohen(2)                                                       66,666                         *
     Michael E. Herman(2)(4)                                              79,666                         *
     Irving S. Johnson(2)                                                 35,266                         *
     Antonie T. Knoppers(2)                                               50,866                         *
     Melvin I. Simon(2)(3) and Linda F. Simon Living Trust(5)            151,666                         *
     Neil J. Clendeninn                                                   91,118                         *
     Barry D. Quart                                                      105,270                         *
     R. Kent Snyder(7)                                                   125,656                         *

All executive officers and directors as a group (19 persons)           2,438,970                         7.66%
</TABLE>
- --------------------------

*    less than 1%.

(1)  Unless otherwise  indicated,  the persons named in the above table exercise
     sole voting and investment  powers with respect to all shares  beneficially
     owned by them, subject to applicable community property laws. The number of
     shares  beneficially owned includes the following number of shares issuable
     upon exercise of stock options  exercisable within 60 days of September 23,
     1997: Mr.  Johnson,  568,890 shares;  Mr.  Friedman,  202,118  shares;  Dr.
     Abelson,  21,666 shares;  Ms.  Cloherty,  6,666 shares;  Mr. Cohen,  36,666
     shares; Mr. Herman, 32,666 shares; Dr. Johnson, 9,166 shares; Dr. Knoppers,
     36,666 shares; Dr. Simon, 21,666 shares; Dr. Clendeninn, 20,892 shares; Dr.
     Quart 86,200 shares; Mr. Snyder,120,034  shares; and all executive officers
     and directors as a group, 1,583,886 shares.

(2)  Director.

(3)  Does not include 1,106,000 shares held by The Agouron  Institute,  of which
     Drs. Abelson and Simon are directors.  As directors,  they share voting and
     investment powers as to the shares held by The Agouron Institute.

(4)  Includes 20,000 shares held by the Herman Family Trading Company,  a family
     partnership of which Mr. Herman is the general partner,  10,000 shares held
     by Vail  Fishing  Partners in which Mr.  Herman has a 50%  general  partner
     interest  and  2,400  shares  held by Mrs.  Herman,  of  which  Mr.  Herman
     disclaims any beneficial ownership.

(5)  Shared voting and investment power.

(6)  Includes  1,000 shares held by Dr.  Abelson as custodian  for his minor
     children, of which Dr. Abelson disclaims any beneficial ownership.
          
(7)  Includes 800 shares held by immediate family members, of which Mr. Snyder 
     disclaims any beneficial ownership.

(8)  Includes 4,052 shares held by wife as custodian for minor children of which
     Mr. Friedman disclaims any beneficial ownership.

(9)  Adjusted to reflect two-for-one stock split in August 1997.

                                       5
<PAGE>


                             EXECUTIVE COMPENSATION

Compensation of Directors

    Non-employee members of the Board receive cash compensation in the amount of
$250 per Board meeting for their services as Board members, and are eligible for
reimbursement  of their  expenses  incurred  to  attend  each  such  meeting  in
accordance   with  Company  policy.   In  addition  to  meeting  fees,   certain
non-employee   directors  received  consulting  fees  during  fiscal  1997.  For
scientific consultation, Dr. Abelson received $29,040; Dr. Knoppers, $5,000; Dr.
Johnson,  $18,000 and Dr. Simon,  $24,200. For special  consultation  concerning
corporate development issues, Mr. Cohen received $18,000 and Mr. Herman received
$18,000.

Compensation of Executive Officers

     The following table sets forth the aggregate  compensation  paid or accrued
by the Company to the Chief Executive  Officer and to the four other most highly
compensated  executive officers whose annual compensation  exceeded $100,000 for
the  fiscal  year  ended  June  30,  1997  (collectively  the  "named  executive
officers")  for service  during the fiscal years ended June 30,  1997,  1996 and
1995:

                           Summary Compensation Table

<TABLE>
<CAPTION>
                                                                                    Long-Term
                                                                                  Compensation
        Name                              Annual Compensation                       Awards(2)(3)
     Principal                                                                        Stock             All Other
     Position                     Year        Salary(1)         Bonus                Options          Compensation(4)

<S>                              <C>         <C>              <C>                    <C>                 <C>   
Peter Johnson                    1997        $330,000         $165,000               100,000             $2,250
President and Chief              1996         285,000          100,000               180,000              1,647
Executive Officer                1995         253,500           70,000(5)            156,400                948

Neil J. Clendeninn               1997         206,600           75,000                26,000             23,452
Corporate Vice President,        1996         192,900           40,000                44,000              1,685
Clinical Affairs                 1995         187,900           88,309(5)(6)          20,000            131,619

Gary E. Friedman                 1997         195,000           70,000                26,000              2,250
Corporate Vice President,        1996         175,500           50,000                50,000              1,589
General Counsel                  1995         171,100           30,000(5)             40,000                972

Barry D. Quart(5)                1997         180,000          115,500(7)             44,000              2,953
SeniorVice President,            1996         165,000           70,500(7)             72,000             16,587
Regulatory Affairs               1995         150,600           57,000(5)             60,000              9,005

R. Kent Snyder(5)                1997         200,000          102,000(7)             44,000              2,250
Senior Vice President,           1996         178,500           62,200(7)             64,000              1,777
Commercial Affairs               1995         158,000           55,000(5)             40,000              1,014

- -----------------------------------
<FN>
(1)  Includes  amounts deferred out of compensation  under the Company's  401(k) Plan otherwise  payable in cash during
     each fiscal year.
(2)  The Company has made no restricted stock awards,  has not granted any stock
     appreciation rights and has no other long-term incentive plans.
(3)  Adjusted to reflect two-for-one stock split in August 1997.
(4)  (a) During 1997, the Company made matching  contributions to the Company's  401(k) Plan in the following  amounts:
         Mr. Johnson, $2,250; Dr. Clendeninn, $2,550; Mr. Friedman $2,250; Dr. Quart, $2,953 and Mr. Snyder, $2,250.
     (b) During 1996, the Company made matching contributions to the Company's 401(k) Plan in the following amounts:
         Mr. Johnson, $1,647; Dr. Clendeninn, $1,647; Mr. Friedman $1,589; Dr. Quart, $1,959; and Mr. Snyder, $1,777.
     (c) During 1995, the Company made matching  contributions to the Company's  401(k) Plan in the following  amounts:
         Mr. Johnson, $948; Dr. Clendeninn, $900; Mr. Friedman $972; Dr. Quart, $557; and Mr. Snyder, $1,014.
     (d) During 1997, the Company reimbursed Dr. Clendeninn for relocation costs in the amount of $20,901.
     (e) During 1996, the Company reimbursed Dr. Quart for relocation costs in the amount of $14,628.
     (f) During  1995,  the Company  reimbursed  certain  officers for  relocation  costs as follows:  Dr.  Clendeninn,
         $130,719 and Dr. Quart, $8,448.
(5)  Cash bonus shown in year earned;  actually  paid in fiscal 1996.  For Dr. Quart and Mr.  Snyder,  a portion of the
     bonus amount was subsequently used to partially repay their outstanding relocation loans.
(6)  A portion of the bonus was used to partially  repay an  outstanding  relocation  loan and $43,982 of the bonus was
     directly applied to the reduction of such loan.
(7)  For Dr.  Quart and Mr.  Snyder,  a portion of the bonus  amount was  subsequently  used to  partially  repay their
     outstanding relocation loans.  These loans were paid in full on June 30, 1997.
</FN>
</TABLE>


                                       6
<PAGE>


     The  following  table  sets  forth  certain  information  with  respect  to
individual  grants of stock  options  made during the fiscal year ended June 30,
1997, to each of the named executive officers:

<TABLE>
<CAPTION>
                          Option Grants in Fiscal 1997

                                                                                     Potential Realizable Value at
                                                                                       Assumed Annual Rates of
                                                                                       Stock Price Appreciation
                                Individual Grants                                          for Option Term(2)
_________________________________________________________________________________    _____________________________
                                            % of Total
                                              Options
                                            Granted to
                                             Employees
                                 Options     in Fiscal     Exercise    Expiration
    Name                      Granted(1) (3)     Year      Price(3)      Date             5%                10%
- ------------                 ---------------------------------------------------     -----------      ---------
<S>                            <C>             <C>          <C>          <C>           <C>            <C>

Peter Johnson                  92,686#         2.9%         $41.00       6/29/07       $2,389,900     $6,056,400
                                7,314*         0.2           41.00       6/29/07          188,600        477,900

Neil J. Clendeninn             18,686#         0.6           41.00       6/29/07          481,800      1,221,000
                                7,314*         0.2           41.00       6/29/07          188,600        477,900

Gary E. Friedman               18,686#         0.6           41.00       6/29/07          481,800      1,221,000
                                7,314*         0.2           41.00       6/29/07          188,600        477,900

Barry D. Quart                 36,686#         1.2           41.00       6/29/07          945,900      2,397,200
                                7,314*         0.2           41.00       6/29/07          188,600        477,900

R. Kent Snyder                 36,686#         1.2           41.00       6/29/07          945,900      2,397,200
                                7,314*         0.2           41.00       6/29/07          188,600        477,900

</TABLE>


(1)  During  fiscal 1997,  the Agouron  Stock Option Plan ("Plan") for executive
     officers and directors was administered by the Board. The Board, based upon
     the recommendation of the Directors Compensation Committee,  determines the
     number  of  shares  to be  granted  and the  term of  such  grants  to each
     executive  officer and  director.  The options  granted in fiscal 1997 were
     either incentive stock options(*) or non-statutory  stock options(#),  have
     exercise prices equal to the fair market values on the date of grant,  vest
     over a period of three  years and have a term of ten  years.  Upon  certain
     corporate  events  as  defined  in the Plan  which  result  in a change  of
     control,  the exercise date of all  outstanding  options for all employees,
     including executive officers, may be accelerated. The Plan also permits the
     Company to assist an  employee  in using a  so-called  "cashless"  exercise
     procedure to pay the option exercise price.

(2)  Potential  realizable  value is based on an assumption that the stock price
     of the  common  stock  appreciates  at the annual  rate  shown  (compounded
     annually) from the date of grant until the end of the ten year option term.
     These numbers are calculated based on the  requirements  promulgated by the
     Securities  and  Exchange  Commission  and do  not  reflect  the  Company's
     estimate of future stock price  growth.  Any such growth would  benefit all
     shareholders.

(3)  Adjusted to reflect two-for-one stock split in August 1997.

                                       7
<PAGE>


     The  following  table sets forth certain  information  with respect to each
exercise of stock options during the fiscal year ended June 30, 1997, by each of
the named  executive  officers and the number and value of  unexercised  options
held by such named executive officers as of June 30, 1997:

                                         Option Exercises in Fiscal 1997
                                     And Value of Options at June 30, 1997

<TABLE>
<CAPTION>
                                                             Number of Unexercised          Value of Unexercised
                                                                  Options at              In-the-Money Options at
                                                               June 30, 1997(2)              June 30, 1997(1)
                          Shares                         --------------------------       ------------------------
                         Acquired on         Value
      Name               Exercise(2)       Realized       Exercisable  Unexercisable     Exercisable  Unexercisable
- -----------------        ----------        --------       -----------  -------------     -----------  -------------
<S>                      <C>             <C>               <C>           <C>           <C>             <C>

Peter Johnson              71,110        $2,397,851        543,890       343,800       $ 17,593,900    $ 6,326,600

Neil J. Clendeninn        127,226         4,416,000         14,892        74,482            346,300      1,207,800

Gary E. Friedman                0                 0        192,118        94,482          6,318,400      1,796,100

Barry D. Quart             40,000         1,253,375         98,200       135,400          2,944,200      2,320,500

R. Kent Snyder             20,000           683,450        115,034       127,066          3,606,400      2,164,800


- ----------------------------------
<FN>
(1)  Value  calculated  as market value of Company  stock on June 30, 1997,  minus  exercise  price  multiplied  by the
     number of shares.

(2)  Adjusted to reflect two-for-one stock split in August 1997.
</FN>
</TABLE>

                                       8
<PAGE>


Compensation Committee Report on Executive Compensation(1)

Overview and Philosophy

     The Directors Compensation Committee (the "Committee") is composed entirely
of  outside   directors   and  is   responsible   for   developing   and  making
recommendations   to  the  Board  with  respect  to  the   Company's   executive
compensation  policies and practices,  including the establishment of the annual
total compensation for the chief executive officer (the "CEO") and all executive
officers.  The Committee has available to it an outside compensation  consultant
and  access to  independent  compensation  data.  The Board is  responsible  for
approving and implementing the  compensation  recommendations  of the Committee.
The recommendations made by the Committee to the Board during 1997 were approved
without any significant modification.

     The  objectives  of the  Company's  executive  compensation  program are to
attract,  retain  and  motivate  highly  qualified  executive  personnel.  These
objectives  are  satisfied  through  the  use of  three  principal  compensation
elements: base salary, cash bonus payments and stock options.

Base Salary

     Base salary  levels for the Company's  executive  officers are based on the
concept  of pay  for  performance  and are  competitively  set  relative  to the
compensation of other executives in the biotechnology industry. Extensive salary
survey data is  available on the industry  (notably,  the annual  "Biotechnology
Compensation and Benefits Survey" conducted by Radford  Associates and Alexander
& Alexander  Consulting  Group) and is utilized by the Committee in establishing
annual base salaries. In determining base salaries, the Committee also considers
corporate  performance  and progress in the immediately  preceding  fiscal year,
individual experience and performance, specific issues which are relevant to the
Company  and  general  economic  conditions.  The base salary of the CEO and all
other executive officers is reviewed annually. During fiscal year 1997, the base
salaries paid to the executive officers other than the CEO approximated the 75th
percentile of the above-noted industry survey data.

Bonus Payments

     Annual cash bonus  payments are  discretionary  unless  otherwise  required
pursuant to an  employment  agreement.  Bonus  payments,  if any,  to  executive
officers,  including the CEO, or payments above the required annual minimum, are
based  on two  principal  factors:  corporate  performance  as  compared  to the
Company's  annual goals and objectives and  individual  performance  relative to
corporate performance and individual goals and objectives.

     Bonus payments in 1997 were generally in recognition of the satisfaction of
several significant  corporate  objectives during the year, including the timely
submission  of a New Drug  Application  (NDA) to the United States Food and Drug
Administration  for  the  Company's  first  product,   VIRACEPT(R)   (nelfinavir
mesylate),  the subsequent approval of the NDA and successful  commercial launch
of  VIRACEPT  in  March  1997,  the  acquisition  of  Alanex  Corporation,   the
establishment of a major corporate  collaboration,  a successful public offering
of common stock, and the continued  preclinical and clinical  development of the
Company's cancer and anti-viral agents.

     Bonus payment recommendations for executive officers other than the CEO are
initiated by the CEO and submitted to the  Committee  for review and  subsequent
submission to the Board. Bonus payment recommendations for the CEO are initiated
by the Committee and submitted to the Board.

     Total  base  salary  and  any  bonus   payments   are  compared  to  "total
compensation" of peers as reported by the previously noted industry survey. Such
total  compensation for the executive officers of the Company is at or above the
averages of such data,  which reflects the Committee's  belief that the relative
levels of corporate performance during the period were also above average.

- ---------------------------------
(1) The material in this report is not soliciting material, is not deemed filed
     with the SEC,  and is not  incorporated  by  reference in any filing of the
     Company  under  the  Securities  Act of 1933  (the  "Securities  Act"),  as
     amended,  or the Securities  Exchange Act of 1934 (the "Exchange  Act"), as
     amended,  whether made before or after the date of this Proxy Statement and
     irrespective of any general incorporation language in such filing.



                                       9
<PAGE>


Stock Options

     To conserve its cash  resources,  the Company  places  special  emphasis on
equity-based  incentives to attract,  retain and motivate  executive officers as
well as other  employees.  Under the Company's  stock option  plans,  grants are
generally  priced at the fair  market  value on the date of  grant,  vest over a
period of three or four years and have a term of ten  years.  Grants are made to
all  employees  on their date of hire based on salary  level and  position.  All
employees,   including   executive   officers,   are  eligible  for  subsequent,
discretionary grants which are generally based on either individual or corporate
performance.  It is the  Committee's  intent that the interests of the Company's
shareholders  and the executive  officers be closely  aligned through the use of
stock options.  Option grants  recommended by the Committee are submitted to the
Board for  approval.  Based on recent  peer-company  proxy data  compiled by the
Company,  the level of option grants to each  executive  officer in 1997 remains
competitive,  and the  resultant  total  option  position  as a percent of total
shares outstanding represents  approximately the 70th to 90th percentile of such
positions.

Chief Executive Officer Compensation

     During 1997, Mr.  Johnson's base salary of $330,000 was based on individual
and corporate  performance,  and was between the 70th and 75th percentile of the
updated industry data for base salaries of CEOs.

     During 1997,  Mr. Johnson was awarded a bonus of $165,000 in recognition of
the  satisfaction of several  significant  corporate  objectives,  including the
continued  preclinical and clinical  development of product  candidates,  one of
which,  VIRACEPT(R),  was approved by the FDA in March 1997, the completion of a
secondary  offering of the Company's common stock and the successful merger with
Alanex  Corporation.  The  Committee  believes  that  Mr.  Johnson  has  made  a
significant   contribution  during  1997  in  enhancing  shareholder  value  and
establishing a sound base for the continued  enhancement  of  shareholder  value
through his managerial and entrepreneurial efforts.

     The stock options awarded to Mr. Johnson during fiscal 1997 are competitive
and consistent  with the purpose of the stock option plans.  The resultant total
option   position  as  a  percent  of  total   shares   outstanding   represents
approximately the 75th percentile for peer CEO positions.

Executive Compensation Deduction Limitations

     In 1993, Section 162(m) of the Internal Revenue Code ("Section 162(m)") was
enacted which  disallows the  deductibility  by the Company of any  compensation
over $1 million  per year paid to each of the chief  executive  officer  and the
four  other  most  highly  compensated   executive   officers,   unless  certain
performance-based   compensation  criteria  are  satisfied.   While  it  is  the
Committee's firm belief and intent that  compensation  from base salary and cash
bonus  payments will not approach the annual  Section  162(m)  limitation in the
foreseeable future, additional "compensation" from the exercise of option grants
pursuant  to the  Company's  stock  option  plans  could  result  in the  annual
limitation being exceeded. Accordingly, the Company's 1990 and 1996 Stock Option
Plans contain certain provisions which exempt  compensation  resulting from such
option exercises from the $1 million limitation.  The Committee will continue to
monitor all forms of compensation  to its executive  officers to ensure that the
Company may maximize the tax benefits of such compensation.

Directors Compensation Committee

     Michael E. Herman, Chairman
     John N. Abelson, Ph.D.
     A. E. Cohen


Directors Compensation Committee Interlocks and Insider Participation

     The  Directors  Compensation  Committee  is composed  exclusively  of three
outside  directors:  Mr. Herman,  Mr. Cohen and Dr. Abelson.  The Company is not
aware of any Committee interlocks.



                                       10
<PAGE>


Performance Measurement Comparison(1)

The chart set forth below shows the value of an  investment  of $100 on June 30,
1992 in the  Company's  common  stock,  The  Nasdaq  Stock  Market  Index  (U.S.
Companies) ("Nasdaq Market (US)") and the Nasdaq  Pharmaceutical  Index ("Nasdaq
Pharmaceuticals").  The total  returns  assume the  reinvestment  of  dividends,
although cash  dividends  have not been declared on the Company's  common stock.
The  Company's  common  stock is  traded on The  Nasdaq  Stock  Market  and is a
component of both the Nasdaq  Market (US) and the Nasdaq  Pharmaceutical  Index.
The  comparisons  in the chart  are  required  by the  Securities  and  Exchange
Commission  and are not  intended  to forecast  or be an  indicator  of possible
future performance of the Company's common stock. 


                               [GRAPHIC OMITTED]



<TABLE>
<CAPTION>
                                    6/30/92       6/30/93       6/30/94       6/30/95       6/30/96       6/30/97
                                    -------       -------       -------       -------       -------       -------
<S>                                 <C>            <C>           <C>          <C>           <C>           <C>    
Agouron Common Stock                $100.00        $85.11        $95.74       $201.11       $331.91       $688.34
Nasdaq Market (US)                   100.00        125.76        126.97        169.48        217.59        264.61
Nasdaq Pharmaceuticals               100.00         86.93         72.71         96.52        142.13        144.59


</TABLE>

- -------------

(1)   This section is not  "soliciting  material,"  is not deemed filed with the
      Securities  and  Exchange  Commission  and is not  to be  incorporated  by
      reference  in any filing of the Company  under the  Securities  Act or the
      Exchange Act.









                                       11
<PAGE>


                              CERTAIN TRANSACTIONS

     As part of its employment  agreement with Mr. Snyder,  the Company provided
him with a six-year,  non-interest bearing $85,000 employee relocation loan. The
loan was secured by real property. This loan was paid in full on June 30, 1997.

     As part of its employment  agreement with Dr. Quart,  the Company  provided
him with a four-year, non-interest bearing $60,000 employee relocation loan. The
loan was secured by real property. This loan was paid in full on June 30, 1997.

     All transactions with affiliates have been and will continue to be on terms
no less  favorable  to the  Company  than could be  obtained  from  unaffiliated
parties.  Furthermore, all transactions with affiliates and any loans to Company
officers,  affiliates  or  shareholders  must be  approved  by a majority of the
disinterested directors.

     As permitted by California law, the articles of incorporation and bylaws of
the Company  currently  provide for the  limitation  of director  liability  for
monetary  damages for breach of duty to the Company and for  indemnification  of
agents (including officers and directors) to the full extent permitted under the
California   General   Corporations   Law.   The  Company   has   entered   into
Indemnification Agreements with all of its directors and officers. Additionally,
the Company has in effect a directors and officers  liability  insurance  policy
which insures  directors  and officers of the Company  against loss arising from
claims made against them due to wrongful  acts while acting in their  individual
and collective capacities as directors and officers.


                       SUBMISSION OF SHAREHOLDER PROPOSALS

     Shareholders  are  advised  that  any  shareholder  proposal  intended  for
consideration at the 1998 Annual Meeting of Shareholders must be received by the
Company on or before May 15, 1998 to be included in the Proxy  materials for the
1998 Annual Meeting.  It is recommended that shareholders  submitting  proposals
direct them to the  Secretary of the Company and utilize  Certified  Mail-Return
Receipt Requested.


                         FINANCIAL STATEMENTS AVAILABLE

     Financial  statements for the Company are included in the Company's  Annual
Report to  Shareholders  for the fiscal  year ended  June 30,  1997.  Additional
copies of these  statements and the Annual Report to the Securities and Exchange
Commission  on Form 10-K  (excluding  exhibits,  unless such  exhibits have been
specifically  incorporated by reference  therein) may be obtained without charge
upon written  request to: Investor  Relations,  Agouron  Pharmaceuticals,  Inc.,
10350 North Torrey Pines Road,  La Jolla,  California  92037-1020  or by calling
(619) 622-3000. Web Site address:
http://www.agouron.com.



              RATIFICATION OF SELECTION OF INDEPENDENT ACCOUNTANTS
                           (Item 2 on the Proxy Card)

     The Board has  selected  the firm of Price  Waterhouse  LLP as  independent
accountants  for the Company for the fiscal year ending June 30, 1998,  it being
intended  that  such  selection  would  be  proposed  for  ratification  by  the
affirmative  vote of a majority  of the  shares of the  Company's  common  stock
represented and voting at the Meeting on this matter (which shares constitute at
least a majority  of the  required  quorum for the  Meeting).  For  purposes  of
calculating the vote necessary for  ratification of the selection of independent
accountants,  abstentions and non-votes are not counted.  One or more members of
Price  Waterhouse  LLP are  expected  to be present at the  Meeting  and will be
available to respond to questions and make a statement if they desire to do so.

     The Board recommends that you vote FOR the ratification of the selection of
Price Waterhouse LLP, which is set forth as Item 2 on the Proxy Card.


                                       12
<PAGE>


                                  OTHER MATTERS

     The  Company's  Annual  Report  for the fiscal  year  ended  June 30,  1997
accompanies this Proxy Statement.

     Section 16(a) of the Securities Exchange Act of 1934 requires the Company's
executive  officers  and  directors,  and  persons  who own  more  than 10% of a
registered  class  of the  Company's  equity  securities,  to  file  reports  of
ownership and changes in ownership with the  Securities and Exchange  Commission
and The Nasdaq Stock Market. Executive officers,  directors and greater than 10%
shareholders  are required by Securities and Exchange  Commission  regulation to
furnish the Company  with  copies of all  Section  16(a) forms they file.  Based
solely on review  of the  copies of such  forms  furnished  to the  Company,  or
written  representations  that no Forms 5 were  required,  the Company  believes
that,  during the applicable  reporting period ending June 30, 1997, all Section
16(a) filing requirements  applicable to its executive  officers,  directors and
greater than 10% beneficial owners were satisfied.

     The  Company's  Board does not know of any other matters to be presented at
the Meeting. However, if any other business is properly presented at the Meeting
for action, the persons named in the enclosed form of Proxy will vote such Proxy
according to their best judgment on such matters.

BY ORDER OF THE BOARD OF DIRECTORS


/s/ Gary E. Friedman

Gary E. Friedman, Secretary
September 26, 1997



                                       13
<PAGE>


                          AGOURON PHARMACEUTICALS, INC.
                          10350 North Torrey Pines Road
                         La Jolla, California 92037-1020
           THIS PROXY IS SOLICITED ON BEHALF OF THE BOARD OF DIRECTORS
     The  undersigned  hereby  appoints Peter Johnson and Gary E. Friedman,  and
each of them,  with full power of  substitution,  as proxies to represent and to
vote,  as  designated   below,  all  the  shares  of  common  stock  of  Agouron
Pharmaceuticals,  Inc., held of record by the undersigned on September 23, 1997,
at the Annual Meeting of  Shareholders to be held on November 6, 1997 and at any
adjournments or postponements thereof.
     THIS PROXY,  WHEN PROPERLY  EXECUTED,  WILL BE VOTED IN THE MANNER DIRECTED
HEREIN BY THE UNDERSIGNED SHAREHOLDER. IF NO OTHER DIRECTION IS MADE, THIS PROXY
WILL BE VOTED FOR THE ELECTION OF THE DIRECTOR NOMINEES LISTED ON THE OTHER SIDE
AND FOR PROPOSAL 2. IF CUMULATIVE  VOTING  PROCEDURES ARE INVOKED AT THE MEETING
AND THIS PROXY CARD  INDICATES  "FOR" OR GIVES NO  DIRECTION  ON PROPOSAL 1, THE
DESIGNATED  PROXIES ARE AUTHORIZED TO DISTRIBUTE  THE VOTES  REPRESENTED BY THIS
PROXY IN THEIR  DISCRETION  SO AS TO ELECT  THE  MAXIMUM  NUMBER  OF  MANAGEMENT
NOMINEES WHICH MAY BE ELECTED BY CUMULATIVE VOTING.

                           (continued on reverse side)

                              FOLD AND DETACH HERE



                                [GRAPHIC OMITTED]










               Please check the appropriate box on the voting card
    to R.S.V.P. your attendance at the Meeting on Nov. 6, 1997 at 10:00 a.m.
             or phone Agouron Investor Relations at 1-800-501-2474.


<PAGE>

            
                                                            Please mark
                                                            our vote as   / X /
                                                            indicated in
                                                            this example



The Board recommends a vote FOR Proposals 1 and 2.
                                                               
1.   Proposal 1-                              FOR ALL    WITHHOLD   
     ELECTION OF DIRECTORS                    NOMINEES   FOR ALL  
                                                                       
     Peter Johnson     Gary E. Friedman        / /         / /             
     John N. Abelson   Patricia M. Cloherty
     A. E. Cohen       Michael E. Herman                    
     Irving S. Johnson Antonie T. Knoppers                         
     Melvin I. Simon                                       

WITHHELD  FOR:  (To  withhold  authority  to  vote  for  any         
individual  nominee,  write that nominee's name in the space        
provided below.)                                                  
- ----------------------------------------------------------------

2.   Proposal 2:                        FOR     AGAINST    ABSTAIN

     RATIFICATION OF THE SELECTION      / /      / /       / /
     OF INDEPENDENT ACCOUNTANTS
       

3.   IN THEIR DISCRETION, THE PROXIES ARE AUTHORIZED TO
     VOTE UPON SUCH OTHER BUSINESS AS MAY PROPERLY
     COME  BEFORE  THE MEETING.

                     Check here if you
                     plan to attend the     / /
                       Annual Meeting.











Signature(s) _____________________________________ Date _________________, 1997 
NOTE: Please sign as name appears hereon.  Joint owners should each sign. When 
signing as attorney, executor, administrator,  trustee or guardian, please give
full title as such.

                              FOLD AND DETACH HERE



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