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Proc-Type: 2001,MIC-CLEAR
Originator-Name: webmaster@www.sec.gov
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MIC-Info: RSA-MD5,RSA,
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 Yxw1ts9o30AAmtwYWaSSZw==

<SEC-DOCUMENT>0001273013-08-000041.txt : 20080509
<SEC-HEADER>0001273013-08-000041.hdr.sgml : 20080509
<ACCEPTANCE-DATETIME>20080509143933
ACCESSION NUMBER:		0001273013-08-000041
CONFORMED SUBMISSION TYPE:	4
PUBLIC DOCUMENT COUNT:		1
CONFORMED PERIOD OF REPORT:	20080507
FILED AS OF DATE:		20080509
DATE AS OF CHANGE:		20080509

REPORTING-OWNER:	

	OWNER DATA:	
		COMPANY CONFORMED NAME:			KIMBALL DAVID
		CENTRAL INDEX KEY:			0001226860

	FILING VALUES:
		FORM TYPE:		4
		SEC ACT:		1934 Act
		SEC FILE NUMBER:	000-50523
		FILM NUMBER:		08817783

	BUSINESS ADDRESS:	
		BUSINESS PHONE:		6094523600

	MAIL ADDRESS:	
		STREET 1:		PO BOX 5350
		CITY:			PRINCETON
		STATE:			NJ
		ZIP:			08543

ISSUER:		

	COMPANY DATA:	
		COMPANY CONFORMED NAME:			PHARMACOPEIA INC
		CENTRAL INDEX KEY:			0001273013
		STANDARD INDUSTRIAL CLASSIFICATION:	SERVICES-COMMERCIAL PHYSICAL & BIOLOGICAL RESEARCH [8731]
		IRS NUMBER:				510418085
		STATE OF INCORPORATION:			DE
		FISCAL YEAR END:			1231

	BUSINESS ADDRESS:	
		STREET 1:		P.O. BOX 5350
		CITY:			PRINCETON
		STATE:			NJ
		ZIP:			08543-5350
		BUSINESS PHONE:		609-452-3600

	MAIL ADDRESS:	
		STREET 1:		P.O. BOX 5350
		CITY:			PRINCETON
		STATE:			NJ
		ZIP:			08543-5350

	FORMER COMPANY:	
		FORMER CONFORMED NAME:	PHARMACOPEIA DRUG DISCOVERY INC
		DATE OF NAME CHANGE:	20031212
</SEC-HEADER>
<DOCUMENT>
<TYPE>4
<SEQUENCE>1
<FILENAME>edgardoc.xml
<DESCRIPTION>PRIMARY DOCUMENT
<TEXT>
<XML>
<?xml version="1.0"?>
<ownershipDocument>

    <schemaVersion>X0202</schemaVersion>

    <documentType>4</documentType>

    <periodOfReport>2008-05-07</periodOfReport>

    <notSubjectToSection16>0</notSubjectToSection16>

    <issuer>
        <issuerCik>0001273013</issuerCik>
        <issuerName>PHARMACOPEIA INC</issuerName>
        <issuerTradingSymbol>PCOP</issuerTradingSymbol>
    </issuer>

    <reportingOwner>
        <reportingOwnerId>
            <rptOwnerCik>0001226860</rptOwnerCik>
            <rptOwnerName>KIMBALL DAVID</rptOwnerName>
        </reportingOwnerId>
        <reportingOwnerAddress>
            <rptOwnerStreet1>PHARMACOPEIA, INC.</rptOwnerStreet1>
            <rptOwnerStreet2>P.O. BOX 5350</rptOwnerStreet2>
            <rptOwnerCity>PRINCETON</rptOwnerCity>
            <rptOwnerState>NJ</rptOwnerState>
            <rptOwnerZipCode>08543-5350</rptOwnerZipCode>
            <rptOwnerStateDescription></rptOwnerStateDescription>
        </reportingOwnerAddress>
        <reportingOwnerRelationship>
            <isDirector>0</isDirector>
            <isOfficer>1</isOfficer>
            <isTenPercentOwner>0</isTenPercentOwner>
            <isOther>0</isOther>
            <officerTitle>SVP, Discovery</officerTitle>
        </reportingOwnerRelationship>
    </reportingOwner>

    <nonDerivativeTable>
        <nonDerivativeTransaction>
            <securityTitle>
                <value>Common Stock</value>
            </securityTitle>
            <transactionDate>
                <value>2008-05-07</value>
            </transactionDate>
            <transactionCoding>
                <transactionFormType>4</transactionFormType>
                <transactionCode>A</transactionCode>
                <equitySwapInvolved>0</equitySwapInvolved>
            </transactionCoding>
            <transactionAmounts>
                <transactionShares>
                    <value>35000</value>
                    <footnoteId id="F1"/>
                </transactionShares>
                <transactionPricePerShare>
                    <value>0</value>
                </transactionPricePerShare>
                <transactionAcquiredDisposedCode>
                    <value>A</value>
                </transactionAcquiredDisposedCode>
            </transactionAmounts>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>36164.02</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>D</value>
                </directOrIndirectOwnership>
            </ownershipNature>
        </nonDerivativeTransaction>
    </nonDerivativeTable>

    <derivativeTable>
        <derivativeHolding>
            <securityTitle>
                <value>Non-Qualified Stock Option (right to buy)</value>
            </securityTitle>
            <conversionOrExercisePrice>
                <value>3.63</value>
            </conversionOrExercisePrice>
            <exerciseDate>
                <value>2009-04-01</value>
                <footnoteId id="F2"/>
            </exerciseDate>
            <expirationDate>
                <value>2018-04-01</value>
            </expirationDate>
            <underlyingSecurity>
                <underlyingSecurityTitle>
                    <value>Common Stock</value>
                </underlyingSecurityTitle>
                <underlyingSecurityShares>
                    <value>40000</value>
                </underlyingSecurityShares>
            </underlyingSecurity>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>40000</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>D</value>
                </directOrIndirectOwnership>
            </ownershipNature>
        </derivativeHolding>
        <derivativeHolding>
            <securityTitle>
                <value>Non-Qualified Stock Option (right to buy)</value>
            </securityTitle>
            <conversionOrExercisePrice>
                <value>3.84</value>
            </conversionOrExercisePrice>
            <exerciseDate>
                <footnoteId id="F2"/>
            </exerciseDate>
            <expirationDate>
                <value>2018-02-25</value>
            </expirationDate>
            <underlyingSecurity>
                <underlyingSecurityTitle>
                    <value>Common Stock</value>
                </underlyingSecurityTitle>
                <underlyingSecurityShares>
                    <value>5500</value>
                </underlyingSecurityShares>
            </underlyingSecurity>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>5500</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>D</value>
                </directOrIndirectOwnership>
            </ownershipNature>
        </derivativeHolding>
        <derivativeHolding>
            <securityTitle>
                <value>Non-Qualified Stock Option (right to buy)</value>
            </securityTitle>
            <conversionOrExercisePrice>
                <value>5.66</value>
            </conversionOrExercisePrice>
            <exerciseDate>
                <value>2008-09-17</value>
                <footnoteId id="F3"/>
            </exerciseDate>
            <expirationDate>
                <value>2017-09-17</value>
            </expirationDate>
            <underlyingSecurity>
                <underlyingSecurityTitle>
                    <value>Common Stock</value>
                </underlyingSecurityTitle>
                <underlyingSecurityShares>
                    <value>150000</value>
                </underlyingSecurityShares>
            </underlyingSecurity>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>150000</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>D</value>
                </directOrIndirectOwnership>
            </ownershipNature>
        </derivativeHolding>
    </derivativeTable>

    <footnotes>
        <footnote id="F1">This amount represents restricted stock units granted pursuant to the Amended and Restated 2004 Stock Incentive Plan which vest one-half on each of December 31, 2008 and June 1, 2009, subject to tax withholding</footnote>
        <footnote id="F2">All stock options have a 10 year life and become exercisable for 1/4th of the total shares one year from the date of grant and thereafter at a rate of 1/48th of the total shares per month.</footnote>
        <footnote id="F3">All stock options have a 10 year life.  An option to purchase 100,000 shares will vest 25% after one year and monthly thereafter for the following 36 months.  An option to purchase 50,000 shares will vest in two 25,000 share tranches upon the achievement, if any, of certain enumerated objective performance criteria.</footnote>
    </footnotes>

    <ownerSignature>
        <signatureName>By: Justin Vogel  For: S. David Kimball</signatureName>
        <signatureDate>2008-05-09</signatureDate>
    </ownerSignature>
</ownershipDocument>
</XML>
</TEXT>
</DOCUMENT>
</SEC-DOCUMENT>
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