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Proc-Type: 2001,MIC-CLEAR
Originator-Name: webmaster@www.sec.gov
Originator-Key-Asymmetric:
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 TWSM7vrzLADbmYQaionwg5sDW3P6oaM5D3tdezXMm7z1T+B+twIDAQAB
MIC-Info: RSA-MD5,RSA,
 FWePHxk1HJH9Si6foEah+nfxxFr0EK84aHAVimRncsNB1iV7aaZbc6ZU1lfA1PQ5
 iR9qy+02zKNrRN++uIHBLg==

<SEC-DOCUMENT>0001209191-09-015136.txt : 20090310
<SEC-HEADER>0001209191-09-015136.hdr.sgml : 20090310
<ACCEPTANCE-DATETIME>20090310152956
ACCESSION NUMBER:		0001209191-09-015136
CONFORMED SUBMISSION TYPE:	4
PUBLIC DOCUMENT COUNT:		1
CONFORMED PERIOD OF REPORT:	20090309
FILED AS OF DATE:		20090310
DATE AS OF CHANGE:		20090310

REPORTING-OWNER:	

	OWNER DATA:	
		COMPANY CONFORMED NAME:			CAVANAUGH JAMES H
		CENTRAL INDEX KEY:			0001013473
		STATE OF INCORPORATION:			DE
		FISCAL YEAR END:			0731

	FILING VALUES:
		FORM TYPE:		4
		SEC ACT:		1934 Act
		SEC FILE NUMBER:	001-32587
		FILM NUMBER:		09669303

	BUSINESS ADDRESS:	
		BUSINESS PHONE:		6094303930

	MAIL ADDRESS:	
		STREET 1:		44 NASSAU ST
		CITY:			PRINCETON
		STATE:			NJ
		ZIP:			08542

ISSUER:		

	COMPANY DATA:	
		COMPANY CONFORMED NAME:			PHARMATHENE, INC
		CENTRAL INDEX KEY:			0001326190
		STANDARD INDUSTRIAL CLASSIFICATION:	PHARMACEUTICAL PREPARATIONS [2834]
		IRS NUMBER:				202726770
		STATE OF INCORPORATION:			DE
		FISCAL YEAR END:			1231

	BUSINESS ADDRESS:	
		STREET 1:		ONE PARK PLACE, SUITE 450
		CITY:			ANNAPOLIS
		STATE:			MD
		ZIP:			21401
		BUSINESS PHONE:		410 269 2600

	MAIL ADDRESS:	
		STREET 1:		ONE PARK PLACE, SUITE 450
		CITY:			ANNAPOLIS
		STATE:			MD
		ZIP:			21401

	FORMER COMPANY:	
		FORMER CONFORMED NAME:	HEALTHCARE ACQUISITION CORP
		DATE OF NAME CHANGE:	20050505
</SEC-HEADER>
<DOCUMENT>
<TYPE>4
<SEQUENCE>1
<FILENAME>doc4.xml
<DESCRIPTION>FORM 4 SUBMISSION
<TEXT>
<XML>
<?xml version="1.0"?>
<ownershipDocument>

    <schemaVersion>X0303</schemaVersion>

    <documentType>4</documentType>

    <periodOfReport>2009-03-09</periodOfReport>

    <notSubjectToSection16>0</notSubjectToSection16>

    <issuer>
        <issuerCik>0001326190</issuerCik>
        <issuerName>PHARMATHENE, INC</issuerName>
        <issuerTradingSymbol>PIP</issuerTradingSymbol>
    </issuer>

    <reportingOwner>
        <reportingOwnerId>
            <rptOwnerCik>0001013473</rptOwnerCik>
            <rptOwnerName>CAVANAUGH JAMES H</rptOwnerName>
        </reportingOwnerId>
        <reportingOwnerAddress>
            <rptOwnerStreet1>C/O HEALTHCARE VENTURES LLC</rptOwnerStreet1>
            <rptOwnerStreet2>44 NASSAU STREET</rptOwnerStreet2>
            <rptOwnerCity>PRINCETON</rptOwnerCity>
            <rptOwnerState>NJ</rptOwnerState>
            <rptOwnerZipCode>08542</rptOwnerZipCode>
            <rptOwnerStateDescription></rptOwnerStateDescription>
        </reportingOwnerAddress>
        <reportingOwnerRelationship>
            <isDirector>1</isDirector>
            <isOfficer>0</isOfficer>
            <isTenPercentOwner>1</isTenPercentOwner>
            <isOther>0</isOther>
        </reportingOwnerRelationship>
    </reportingOwner>

    <derivativeTable>
        <derivativeTransaction>
            <securityTitle>
                <value>Option (Right to Buy)</value>
            </securityTitle>
            <conversionOrExercisePrice>
                <value>2.59</value>
            </conversionOrExercisePrice>
            <transactionDate>
                <value>2009-03-09</value>
            </transactionDate>
            <deemedExecutionDate></deemedExecutionDate>
            <transactionCoding>
                <transactionFormType>4</transactionFormType>
                <transactionCode>A</transactionCode>
                <equitySwapInvolved>0</equitySwapInvolved>
            </transactionCoding>
            <transactionTimeliness>
                <value></value>
            </transactionTimeliness>
            <transactionAmounts>
                <transactionShares>
                    <value>10000</value>
                </transactionShares>
                <transactionPricePerShare>
                    <value>0.00</value>
                </transactionPricePerShare>
                <transactionAcquiredDisposedCode>
                    <value>A</value>
                </transactionAcquiredDisposedCode>
            </transactionAmounts>
            <exerciseDate>
                <value>2009-03-09</value>
            </exerciseDate>
            <expirationDate>
                <value>2018-06-13</value>
            </expirationDate>
            <underlyingSecurity>
                <underlyingSecurityTitle>
                    <value>Common Stock</value>
                </underlyingSecurityTitle>
                <underlyingSecurityShares>
                    <value>10000</value>
                </underlyingSecurityShares>
            </underlyingSecurity>
            <postTransactionAmounts>
                <sharesOwnedFollowingTransaction>
                    <value>10000</value>
                </sharesOwnedFollowingTransaction>
            </postTransactionAmounts>
            <ownershipNature>
                <directOrIndirectOwnership>
                    <value>D</value>
                </directOrIndirectOwnership>
            </ownershipNature>
        </derivativeTransaction>
    </derivativeTable>

    <footnotes></footnotes>

    <remarks></remarks>

    <ownerSignature>
        <signatureName>/s/Jeffrey Steinberg, Attorney-in-Fact for James Cavanaugh</signatureName>
        <signatureDate>2009-03-10</signatureDate>
    </ownerSignature>
</ownershipDocument>
</XML>
</TEXT>
</DOCUMENT>
</SEC-DOCUMENT>
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