MICROCIDE PHARMACEUTICALS INC
10-Q/A, 2000-06-19
PHARMACEUTICAL PREPARATIONS
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                                  UNITED STATES
                       SECURITIES AND EXCHANGE COMMISSION

                             Washington, D.C. 20549

                                    FORM 10-Q

(X) QUARTERLY   REPORT   PURSUANT  TO  SECTION  13  OR  15(d) OF THE  SECURITIES
    EXCHANGE  ACT OF 1934 FOR THE  QUARTERLY  PERIOD ENDED MARCH 31, 2000

                                      OR

( ) TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE
    ACT OF 1934


                         Commission file number: 0-28006


                         MICROCIDE PHARMACEUTICALS, INC.
             (Exact name of registrant as specified in its charter)


                   Delaware                               94-3186021
(State or other jurisdiction of incorporation             (I.R.S. Employer
 of organization)                                         Identification Number)

850 Maude Avenue, Mountain View, California               94043
 (Address of principal executive offices)                 (ZIP Code)


Registrant's telephone number, including area code:       650-428-1550

Indicate by check mark whether the registrant (1) has filed all reports required
to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during
the  preceding 12 months (or for such  shorter  period that the  registrant  was
required  to file  such  reports),  and  (2) has  been  subject  to such  filing
requirements for the past 90 days.

                                 Yes  X       No
                                     ---        ---

Number of shares of Common  Stock,  no par  value,  outstanding  as of April 28,
2000: 11,293,622.


<PAGE>




                         MICROCIDE PHARMACEUTICALS, INC.

                               INDEX FOR FORM 10-Q

                                 MARCH 31, 2000

                                                                           PAGE
                                                                          NUMBER

PART I      FINANCIAL INFORMATION

Item 1.     Financial Statements and Notes

            Condensed Balance Sheets as of March 31, 2000
            and December 31, 1999                                           3

            Condensed Statements of Operations for the three
            months ended March 31, 2000 and March 31, 1999                  4

            Condensed Statements of Cash Flows for the three months
            ended March 31, 2000 and March 31, 1999                         5

            Notes to Condensed Financial Statements                         6

Item 2.     Management's Discussion and Analysis of Financial
            Condition and Results of Operations                             8

Item 3.     Quantitative and Qualitative Disclosures about Market Risk     11


PART II     OTHER INFORMATION                                              12

Item 1.     Legal Proceedings

Item 2.     Changes in Securities

Item 3.     Defaults in Senior Securities

Item 4.     Submission of Matters to a Vote of Security Holders

Item 5.     Other Information

Item 6.     Exhibits and Reports on Form 8-K


SIGNATURES                                                                 13


                                      -2-

<PAGE>

                         MICROCIDE PHARMACEUTICALS, INC.

                            CONDENSED BALANCE SHEETS
                                 (in thousands)


                                                     March 31,     December 31,
                                                        2000           1999
                                                    ------------   ------------
                                                    (Unaudited)     (Note)
ASSETS

Current assets:
  Cash and cash equivalents                          $    4,704     $    5,660
  Short-term investments                                 16,230         19,208
  Receivables, prepaid expenses and other
     current assets                                       1,159            443
                                                    ------------   ------------
Total current assets                                     22,093         25,311

Property and equipment, net                               7,204          7,592

Other assets                                                923            928
                                                    ------------   ------------

Total assets                                         $   30,220      $  33,831
                                                    ============   ============


LIABILITIES AND STOCKHOLDERS' EQUITY

Current liabilities:
  Accounts payable                                   $      356     $      358
  Accrued compensation                                      854            984
  Current portion of notes payable                        1,486          1,440
  Deferred revenue                                           26            387
  Other accrued liabilities                                 686            695
                                                    ------------   ------------
Total current liabilities                                 3,408          3,864

Long-term portion of notes payable                        1,522          1,907
Accrued rent                                                239            257

Stockholders' equity:
  Common stock                                           67,888         67,112
  Accumulated deficit                                   (42,763)       (39,243)
  Accumulated other comprehensive loss                      (74)           (66)
                                                    ------------   ------------

Total stockholders' equity                               25,051         27,803
                                                    ------------   ------------

Total liabilities and stockholders' equity           $   30,220     $   33,831
                                                    ============   ============


NOTE:  The balance  sheet at December 31, 1999 has been derived from the audited
financial  statements  at that date but does not include all of the  information
and footnotes required by generally accepted accounting  principles for complete
financial statements.

                  See Notes to Condensed Financial Statements.

                                      -3-

<PAGE>

                         MICROCIDE PHARMACEUTICALS, INC.

                       CONDENSED STATEMENTS OF OPERATIONS
                    (in thousands, except per share amounts)
                                   (unaudited)

                                                         Three Months Ended
                                                              March 31,
                                                     -------------------------
                                                         2000         1999
                                                     -----------   -----------
Revenues:
  Research revenues                                     $ 1,133     $   2,393
  License, milestone and other revenues                     ---           299
                                                     -----------   -----------
       Total revenues                                     1,133         2,692

Operating expenses:
  Research and development                                4,057         4,748
  General and administrative                                842         1,005
                                                     -----------   -----------
       Total operating expenses                           4,899         5,753
                                                     -----------   -----------

Loss from operations                                     (3,766)       (3,061)

Interest and other income, net                              246           338
                                                     -----------   -----------
       Net loss                                         $(3,520)    $  (2,723)
                                                     ===========   ===========


Basic and diluted net loss per share                    $ (0.31)    $   (0.25)
                                                     ===========   ===========

Weighted-average shares used in computing basic
   and diluted net loss per share                        11,213        11,026




                  See Notes to Condensed Financial Statements.


                                      -4-

<PAGE>

<TABLE>
                         MICROCIDE PHARMACEUTICALS, INC.

                       CONDENSED STATEMENTS OF CASH FLOWS
                                 (In thousands)
                Increase (decrease) in cash and cash equivalents
                                   (unaudited)
<CAPTION>

                                                                        Three Months Ended
                                                                              March 31,
                                                                      ----------------------
                                                                        2000         1999
                                                                      ----------  ----------
<S>                                                                   <C>         <C>
Cash flows used in operating activities:
Net loss                                                              $ (3,520)   $ (2,723)
Adjustments to reconcile net loss to net cash
   provided by (used in) operating activities:
Depreciation and amortization                                              597         694
Amortization of deferred compensation                                      ---         126
Accrued rent                                                               (18)        113
Changes in assets and liabilities:
   Receivables, prepaid expenses and other current assets                 (716)     (1,520)
   Other assets                                                              5         (16)
   Accounts payable                                                         (2)       (237)
   Accrued compensation and other accrued liabilities                     (139)        (97)
   Deferred revenue                                                       (361)         64
                                                                      ----------  ----------

Net cash used in operating activities                                   (4,154)     (3,596)
                                                                      ----------  ----------

Cash flows used in investing activities:

Purchase of short-term investments                                      (2,030)     (6,174)
Maturities of short-term investments                                     5,000       7,300
Capital expenditures                                                      (209)       (232)
                                                                      ----------  ----------

Net cash provided by (used in) investing activities                      2,761         894
                                                                      ----------  ----------

Cash flows from financing activities:

Principal payments on notes payable                                       (339)       (216)
Net proceeds from issuance of common stock                                 776           1
                                                                      ----------  ----------

Net cash used in financing activities                                      437        (215)
                                                                      ----------  ----------

Net decrease in cash and cash equivalents                                 (956)     (2,917)
Cash and cash equivalents, beginning of period                           5,660       7,794
                                                                      ----------  ----------
Cash and cash equivalents, end of period                              $  4,704    $  4,877
                                                                      ==========  ==========

Supplemental disclosure of cash flow information:

Income taxes paid                                                     $      1    $      1
                                                                      ==========  ==========
Interest paid                                                         $     77    $     71
                                                                      ==========  ==========

<FN>
                        See Notes to Condensed Financial Statements.
</FN>
</TABLE>
                                             -5-

<PAGE>

                         MICROCIDE PHARMACEUTICALS, INC.

                     NOTES TO CONDENSED FINANCIAL STATEMENTS

                                 March 31, 2000
                                   (Unaudited)

1.       Summary of Significant Accounting Policies

         Organization and Basis of Presentation

         Microcide Pharmaceuticals,  Inc. (the "Company") is a biopharmaceutical
company  whose  mission  is  to  discover,   develop  and  commercialize   novel
antimicrobials for the improved treatment of serious bacterial, fungal and viral
infections. The Company's discovery and development programs address the growing
problem of bacterial drug  resistance  and the need for improved  antifungal and
antiviral agents through two principal themes: (i) Targeted  Antibiotics,  which
focuses on developing novel antibiotics and antibiotic  potentiators to directly
address existing  bacterial and fungal  resistance  problems,  and (ii) Targeted
Genomics,  which utilizes  bacterial,  fungal and viral genetics to discover new
classes of antimicrobials and other novel treatments for infectious diseases.

         The accompanying  unaudited  condensed  financial  statements have been
prepared in accordance with generally accepted accounting principles for interim
financial  information and with the  instructions to Form 10-Q and Rule 10-01 of
Regulation  S-X.  Accordingly,  they do not include all of the  information  and
footnotes  required by generally  accepted  accounting  principles  for complete
financial statements. In the opinion of management,  all adjustments (consisting
of normal recurring accruals)  considered necessary for a fair presentation have
been included.  The results of operations  for the interim  periods shown herein
are not necessarily indicative of operating results for the entire year.

         This unaudited  financial  data should be read in conjunction  with the
financial  statements and footnotes  contained in the Company's annual report on
Form 10-K for the year ended December 31, 1999.

2.       Net Loss per Share

         Basic  earnings  (loss)  per share is  calculated  using  the  weighted
average  number of common  shares  outstanding.  Because the Company is in a net
loss  position,  diluted  earnings  per share is  calculated  using the weighted
average number of common shares  outstanding and excludes the effects of options
which are antidilutive.  Had the Company been in a net income position,  diluted
earnings  per share would have  included the shares used in the  computation  of
basic net loss per share as well as an additional 1,620,499 and 1,589,205 shares
for 2000 and 1999,  respectively,  related to  outstanding  options not included
above (as determined  using the treasury  stock method at the estimated  average
market value).

3.       Comprehensive Loss

         Comprehensive income (loss) is comprised of net income (loss) and other
comprehensive  income (loss). Other comprehensive income (loss) includes certain
changes  in equity  that are  excluded  from net  income  (loss).  Specifically,
unrealized holding gains and losses on our available-for-sale  securities, which
were reported  separately in  stockholders'  equity,  is included in accumulated
other comprehensive  income (loss).  Comprehensive income (loss) for years ended
December  31,  1999,  1998  and  1997 has been  reflected  in the  Statement  of
Stockholders' Equity.


                                       -6-

<PAGE>



4.       Revenue Recognition

         In December 1999, the Securities and Exchange  Commission  issued Staff
Accounting  Bulletin  No. 101 ("SAB  101"),  "Revenue  Recognition  in Financial
Statements."  SAB 101 summarizes  certain areas of the staff's views in applying
generally accepted accounting principles to revenue recognition. The Company has
completed  its  assessment of the impact of SAB 101 and does not expect that the
implementation of SAB 101 will have a material effect.

5.       Subsequent Events

         In  May  2000,   the  Company  signed  a  new  agreement  with  Daiichi
Pharmaceutical  Co., Ltd. for joint research to discover and develop  inhibitors
that will  overcome the effect of efflux pumps in  Pseudomonas  aeruginosa.  The
agreement  provides for payments to Microcide for research and development costs
for a one-year  term, as well as potential  milestone  payments and royalties on
worldwide sales of any products resulting from this  collaboration.  The Company
has retained product co-promotion rights for North America.


                                      -7-

<PAGE>


ITEM 2. MANAGEMENT'S  DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION AND RESULTS
        OF OPERATIONS

Overview

         As  part  of  the  Company's  strategy  to  enhance  its  research  and
development  capabilities  and to  fund,  in  part,  its  capital  requirements,
Microcide entered into collaborative  agreements with three major pharmaceutical
companies.  Pursuant to the Company's  collaborative  agreements  with Johnson &
Johnson  ("J&J"),  Daiichi  and Pfizer  (the  "Collaborative  Agreements"),  the
Company has received  license  fees,  milestone  payments  and research  support
payments,  and can potentially  receive  additional  research support  payments,
milestone  payments  and  royalty  payments.   License  payments  are  typically
nonrefundable up-front payments for licenses to develop,  manufacture and market
products, if any, that are developed as a result of the collaboration.  Research
support payments are typically contractually obligated payments to fund research
and  development  over the term of the  collaboration.  Milestone  payments  are
payments  contingent  upon the  achievement  of  specified  milestones,  such as
selection of  candidates  for drug  development,  the  commencement  of clinical
trials or receipt of regulatory approvals.  If drugs are successfully  developed
and commercialized as a result of the Collaborative Agreements, the Company will
receive  royalty  payments based upon the net sales of such drugs.  In addition,
the Company has derived other revenues principally through the sale of molecular
diversity to other  pharmaceutical and biotechnology  companies for use in their
research programs, and through short-term contract research.


         Through March 31, 2000, the Company had received in the aggregate $49.9
million in license fees,  milestone payments and research support payments under
the Collaborative  Agreements.  The funded research portion of the Collaborative
Agreements  with  Daiichi and J&J  concluded  at the end of the first and fourth
quarters of 1999, respectively. In November 1999, J&J commenced Phase I clinical
trials  of  the  cephalosporin   compound  developed  during  the  Microcide-J&J
Gram-positive  research  collaboration.  In February  2000,  the  November  1995
Daiichi agreement was amended to focus on advancing a particular class of efflux
pump inhibitor compounds for pre-clinical development.  In May 2000, the Company
and Daiichi signed a new joint research  agreement  whereby Daiichi will provide
research  support  payments for discovering and developing  inhibitors that will
overcome the effect of efflux pumps in Pseudomonas  aeruginosa  (see  Subsequent
Events).  The March 1996 Pfizer  agreement was amended and funding for the fifth
year  effective  March 2000 is at a lower amount.  Assuming that the Daiichi and
Pfizer Agreements are not terminated prior to their scheduled  expiration dates,
the Company will be entitled to receive an  additional  $5.1 million in research
support payments.


         In the  event  that  the  Company  and its  collaborators  achieve  the
specified research and product  development  milestones,  it will be entitled to
receive milestone payments as follows: up to $16.5 million for the first product
and up to $15.5 million for each additional  product  developed  pursuant to the
J&J Agreements,  up to $13.0 million for each product developed  pursuant to the
Daiichi  Agreements and up to $32.5 million for each product developed  pursuant
to the Pfizer Agreements.  The Pfizer Animal Health collaboration provides for a
lower  level of  milestone  payments  than  those  applicable  to  human  health
applications.  Receipt of these milestone  payments is contingent upon achieving
specified research and product development milestones, a number of which may not
be achieved  for several  years,  if ever.  While the  Collaborative  Agreements
provide for royalty  payments on future  products  that may result,  the Company
does not  expect  to  receive  royalties  based  upon net  sales of drugs  for a
significant number of years, if at all.

         Quarterly results of operations are subject to significant fluctuations
based  on  the  timing  and  amount  of  certain   revenues   earned  under  the
Collaborative  Agreements.  The Company  expects to continue to incur  operating
losses in the future.

         This Form 10-Q contains  forward-looking  statements based upon current
expectations,  including  statements  with  regard to the  potential  receipt of
additional research support payments,  milestone payments and royalties from the
Company's    collaborative    partners,    the   successful    development   and
commercialization of drugs and the receipt of royalties thereon or sales revenue
therefrom,  and the period of time for which the  Company's  existing  financial
resources,  interest income and future payments under  Collaborative  Agreements
will be


                                      -8-

<PAGE>

sufficient to enable the Company to maintain current and planned operations, the
continuation  of the  Company's  Collaborative  Agreements  with  its  strategic
partners,  the  potential  impact of any latent  Year 2000 issues and the market
risk of the Company's investments. Such forward-looking statements involve risks
and uncertainties,  including,  without limitation,  the following.  There is no
assurance  that any  compounds  discovered  will  successfully  proceed  through
pre-clinical  development  and  clinical  trials,  obtain  requisite  regulatory
approvals for marketing or result in a commercially useful product.  There is no
assurance  that  the  Company  will  successfully  continue  existing  corporate
collaborations.  There is no assurance that any  development  candidates will be
identified,  that any  selected  development  candidates  will  proceed  through
pre-clinical  trials or will prove safe and effective for treatment of humans or
animals in  clinical  trials.  There is no  assurance  that the  identification,
selection,   manufacture,   pre-clinical   testing,   and  clinical  testing  of
development   candidates   will  not  take   substantially   longer  or  not  be
substantially  more  expensive  than  contemplated  by the Company.  There is no
assurance  that the Company will be able to obtain on a timely basis  government
regulatory clearance required for clinical testing, manufacturing, and marketing
of its products. There is no assurance that any latent Year 2000 issues will not
have a material  impact on the  Company.  For a  discussion  of other  risks and
uncertainties  affecting the Company's business, see the Company's annual report
on Form 10-K for the year ended December 31, 1999. The Company's  actual results
and timing of certain events may differ significantly from the results discussed
in such forward-looking statements as a result of these or other factors.

Results of Operations

Three Months Ended March 31, 2000 and March 31, 1999

Revenues.  Total  revenues for the first  quarter of 2000 were $1.1  million,  a
decrease from $2.7 million in revenues  recognized in the first quarter of 1999.
Revenues were largely derived from the corporate  partnership  with Pfizer.  The
decline in  comparative  revenues  during this period was due  primarily  to the
conclusion of the funded research  portion of  collaborations  with Daiichi (see
Subsequent Events) and J&J in March 1999 and December 1999, respectively.

Research and Development  Expenses.  Research and  development  expenses for the
first quarter  decreased  from $4.7 million in 1999 to $4.0 million in 2000. The
decrease  was due  primarily to lower  compensation  expenses  resulting  from a
reduction in headcount,  lower spending for research supplies and materials, and
lower  research  support  expenses   associated  with  the  Company's  antiviral
discovery program with Iconix.

General and Administrative Expenses. General and administrative expenses for the
first  quarter  decreased  from $1.0  million in 1999 to $842,000  in 2000.  The
decrease  was due  primarily to lower  compensation  expenses  resulting  from a
reduction in headcount and lower outside service costs.

Interest  Income,  net.  Interest  income for the first quarter  decreased  from
$405,000  in 1999 to $321,000  in 2000,  primarily  due to a decrease in average
cash balances. Interest expense for the first quarter of 2000 increased slightly
primarily due to additional debt financing of $435,000 in December 1999.

Liquidity and Capital Resources

         The Company has  financed  its  operations  since  inception  primarily
through  the  sale of  equity  securities,  through  funds  provided  under  the
Collaborative Agreements, through other revenues principally consisting of sales
of molecular diversity and contract research and through equipment financing. As
of March 31,  2000,  the Company had  received  $65.6  million  from the sale of
equity and $49.9  million in cash from license and  milestone  fees and research
support payments under the Collaborative Agreements.

         Cash,  cash  equivalents  and short-term  investments at March 31, 2000
were $20.9 million  compared to $24.9 million at December 31, 1999. The decrease
during  the  first  three  months  of 2000  was due  primarily  to cash  used by
operations  of $4.2  million,  $209,000  in capital  expenditures  and  $339,000
utilized in financing


                                      -9-

<PAGE>

activities,  mainly  principal  payments on the  Company's  equipment  financing
arrangement.  This was  partially  offset by $776,000 in net  proceeds  from the
issuance of common stock from the exercise of stock options.

         The Company  expects  that its  existing  capital  resources,  interest
income and future  payments due under the  Collaborative  Agreements will enable
the Company to maintain current and planned operations at least through 2001. In
the event  that the  Company  requires  additional  funding  at any point in the
future,  the  Company  will seek to raise  such  additional  funding  from other
sources,  including  other  collaborative  arrangements,  and through  public or
private  financings,  including  sales of  equity or debt  securities.  Any such
collaborative  or  licensing  arrangement  could  result in  limitations  on the
Company's ability to control the  commercialization  of resulting drugs, if any,
and could limit profits,  if any,  therefrom.  Any such equity  financing  could
result in dilution to the Company's then-existing stockholders.  There can be no
assurance that additional  funds will be available on favorable terms or at all,
or that such  funds,  if raised,  would be  sufficient  to permit the Company to
continue to conduct its  operations.  If adequate funds are not  available,  the
Company may be required to curtail significantly or eliminate one or more of its
research programs.

Impact of Year 2000

         In prior  periods,  the  Company  has  discussed  its plans and  status
relating to potential computer system  malfunctions  relating to the "Year 2000"
issue,  whereby computer systems would not be able to distinguish  between dates
in the 20th century versus the 21st century. In late 1999, the Company completed
its  assessment,  repair,  upgrade and  replacement of its computer  systems and
research  equipment,  as well as an analysis of the  readiness of third  parties
with whom the Company  interacts.  As a result of its planning  and  remediation
efforts,  the Company experienced no significant  disruptions in its information
technology  and  non-information  technology  systems  and  believes  that those
systems successfully  responded to the Year 2000 date change. The Company is not
aware of any material problems resulting from Year 2000 issues,  either with its
computer  systems or research  equipment  with embedded  chips or software.  The
Company will continue to monitor its information technology systems and those of
its  suppliers  and vendors  throughout  the Year 2000 to ensure that any latent
Year 2000 matters that may arise are  addressed  promptly.  Management  does not
believe  that any latent Year 2000  changes  will have a material  impact on its
business,  financial condition or results of operations.  To date, costs related
to the Year 2000 issues have not been material.


                                       10
<PAGE>


ITEM 3.  QUANTITATIVE AND QUALITATIVE DISCLOSURES ABOUT MARKET RISK

         The following  discussion  about the Company's  market risk  disclosure
involves  forward-looking  statements.  The  Company is  exposed to market  risk
related  mainly to changes in interest  rates.  The  Company  does not invest in
derivative financial instruments.

Interest Rate Sensitivity

         The fair value of the Company's investments in marketable securities at
March 31, 2000 was $18.3 million.  The Company's  investment policy is to manage
its marketable  securities  portfolio to preserve  principal and liquidity while
maximizing  the return on the  investment  portfolio.  The Company's  marketable
securities  portfolio is primarily invested in corporate debt securities with an
average maturity of under one year and a minimum investment grade rating of A or
A-1 or better to minimize  credit risk.  Although  changes in interest rates may
affect  the  fair  value  of  the  marketable  securities  portfolio  and  cause
unrealized  gains or losses,  such gains or losses would not be realized  unless
the investments are sold prior to maturity.

Foreign Currency Exchange Risk

         At this time, the Company does not participate in any foreign  currency
exchange  activities;  therefore,  is not subject to risk of gains or losses for
changes in foreign exchange rates.


                                      -11-

<PAGE>


PART II      OTHER INFORMATION

Item 1.      Legal Proceedings

             None.

Item 2.      Changes in Securities

             None.

Item 3.      Defaults in Senior Securities

             None.

Item 4.      Submission of Matters to a Vote of Security Holders

             None.

Item 5.      Other Information

             None.

Item 6.      Exhibits and Reports on Form 8-K

    (a)      The following exhibits have been filed with this report:

             10.29*  Amendment   to  Joint   Research   Agreement   between  the
                     Registrant  and  Daiichi  Pharmaceutical  Co.,  Ltd.  dated
                     February 4, 2000.

             10.30*  Amendment to Collaborative  Research  Agreement between the
                     Registrant and Pfizer Inc. dated March 1, 2000.

             27.1    Financial Data Schedule

    (b)      Reports on Form 8-K.

             No reports on Form 8-K were filed  during the  quarter  ended March
             31, 2000.

     * To be filed by amendment.

                                      -12-

<PAGE>

                                   SIGNATURES

         Pursuant to the  requirements  of the Securities  Exchange Act of 1934,
the  registrant  has duly  caused  this report to be signed on its behalf by the
undersigned, thereunto duly authorized.

Dated:   June 19, 2000




                   MICROCIDE PHARMACEUTICALS, INC.
                   ------------------------------
                   (Registrant)



                    /s/  James E. Rurka
                   --------------------
                   President, Chief Executive Officer,
                   Acting Chief Financial Officer and Director
                   (principal executive officer and principal financial officer)



                                      -13-



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