Virus Name	Viral Protein	Residue &	± 7 Residues	Reference
		Position
Adeno-Associated Virus 2 (AAV-2)	Rep68	S535	DRLARGHSL------	Han et al. (2004)
Borna Disease Virus (BDV)	p10	S34	LPGGRRRSPDTTTGT	Kobayashi et al. (2003)
	p23	S70	RTGREQLSNDELIKK	Schwemmle et al. (1997)
		S86	VTELAENSMIEAEEV
		S26	QTLRRERSGSPRPRK	Schmid et al. (2007)
		S28	LRRERSGSPRPRKIP
BK Polyomavirus (BKV)	Agnoprotein	S11	RQLSRQASVKVGKTW	Johannessen et al. (2008)
Chandipura Virus (CHPV)	Protein P	S62	DECEEEDSEEDDDNL	Chattopadhyay et al. (1997)
Dengue Virus 2 (DENV-2)	NS5	T395	KKTPRMCTREEFTRK	Forwood et al. (1999)
		T449	HLEGKCETCVYNMMG	Bhattacharya et al. (2009)
Ebolavirus (EBOV)	VP30	T52	ASQVRVPTVFHKKRV	Modrof et al. (2002)
Encephalomyocarditis Virus (EMCV)	polyprotein	T47	WYPEELLTDGEDDVF	Zoll et al. (2002)
Human Adenovirus 2 (HAdV-2)	DBP	S160	TQEEKEESSEAESES	Cleghon et al. (1993)
		S161	QEEKEESSEAESEST
		S70	ALVPRTPSPRPSTST
	E1A	S219	AILRRPTSPVSRECN	Tsukamoto et al. (1986)
	E4orf4	Y26	VGWLGVAYSAVVDVI	Gingras et al. (2002)
		Y42	AAAHEGVYIEPEARG
		Y59	DALREWIYYNYYTER
Human Adenovirus 5 (HAdV-5)	100k	Y365	KLEETLHYTFRQGYV	Xi et al. (2005)
		Y682	LRKGRGVYLDPQSGE
	DBP	T12	EEEQRETTPERGRGA	Cleghon et al. (1993)
		S31	PTMEDVSSPSPSPPP
		S33	MEDVSSPSPSPPPPR
		S35	DVSSPSPSPPPPRAP
		S70	ALVPRTPSPRPSTSA
		T75	TPSPRPSTSAADLAI
		S76	PSPRPSTSAADLAIA
		S92	KKKKKRPSPKPERPP
		S100	PKPERPPSPEVIVDS
		S107	SPEVIVDSEEEREDV
	E1A	S219	AILRRPTSPVSRECN	Tremblay et al. (1988)
		S231	ECNSSTDSCDSGPSN
		S89	TFPPAPGSPEPPHLS	Smith et al. (1989)
		S96	SPEPPHLSRQPEQPE	Dumont et al. (1993)
		S132	HEAGFPPSDDEDEEG	Whalen et al. (1996)
		S185	TCGMFVYSPVSEPEP	Whalen et al. (1997)
		S188	MFVYSPVSEPEPEPE
		S227	PVSRECNSSTDSCDS	Turnell et al. (2000)
		S228	VSRECNSSTDSCDSG
		S234	SSTDSCDSGPSNTPP
		S237	DSCDSGPSNTPPEIH
	E1B	S164	RRRRQEQSPWNPRAG	McGlade et al. (1989)
		T495	FGSSDEDTD------	Takayesu et al. (1994)
	E3 RID-beta	S116	ANQPRPPSPTPTEIS	Lichtenstein et al. (2002)
	Pol	S67	TSGGSPASPLLDASS	Ramachandra et al. (1993)
Hepatitis B Virus (HBV)	Core protein	S155	VVRRRGRSPRRRTPS	Liao and Ou (1995)
		S162	SPRRRTPSPRRRRSQ
		S170	PRRRRSQSPRRRRSQ
		S87	ASRELVVSYVNVNMG	Kang et al. (2006)
		S106	QLLWFHISCLTFGRE	Kang et al. (2008)
	MHB	S28	YFPAGGSSSGTVNPV	Hildt et al. (2002)
Hepatitis C Virus (HCV)	NS2	S168	AVEPVVFSRMETKLI	Franck et al. (2005)
	NS5A	S457	SGSWSTCSEEDDTTV	Tellinghuisen et al. (2008)
	polyprotein	S99	GWAGWLLSPRGSRPS	Shih et al. (1995)
		S2321	CPLPPPRSPPVPPPR	Reed and Rice (1999)
		S2194	GRRLARGSPPSMASS	Katze et al. (2000)
		S53	VRATRKTSERSQPRG	Lu and Ou (2002)
		S116	PTDPRRRSRNLGKVI
		S2197	LARGSPPSMASSSAS	Quintavalle et al. (2007)
		S2201	SPPSMASSSASQLSA
		S2204	SMASSSASQLSAPSL
Hepatitis Delta Virus (HDV)	Small delta antigen	S2	------MSQSETRRG	Yeh et al. (1996)
		S177	QMAGVPESPFSRTGE	Chen et al. (2002)
		S180	GVPESPFSRTGEGLD
		S182	PESPFSRTGEGLDIR
Hepatitis E Virus (HEV)	ORF3 (HEVgp09)	S71	PTPSPRMSPLRPGLD	Zafrullah et al. (1997)
Hendra Virus (HeV)	P protein	S224	RRGDLSKSPPRGNVN	Shiell et al. (2003)
		T239	LDSIKIYTSDDEDEN
Human Herpesvirus 1 (HHV-1)	glycoprotein B	T887*	VMRKRRNTNYTQVPN	Kato et al. (2009)
	ICP0	S224	GHTVRALSPTHPEPT	Davido et al. (2005)
		T226	TVRALSPTHPEPTTD
		T231	SPTHPEPTTDEDDDD
		T232	PTHPEPTTDEDDDDL
		S365	NRDPIVISDSPPASP
		S367	DPIVISDSPPASPHR
		S371	ISDSPPASPHRPPAA
		S508	RPRKRRGSGQENPSP
		S514	GSGQENPSPQSTRPP
		S517	QENPSPQSTRPPLAP
		T518	ENPSPQSTRPPLAPA
	ICP4	T180	WRPSASSTSSDSGSS	Xia et al. (1996)
	ICP22	Y116	DDTSDWSYDDIPPRP	Brandt and Kolb (2003)
	ICP27 (UL54)	S114	RLGARRPSCSPEQHG	Zhi and Sandri-Goldin (1999)
		S16	IDLGLDLSDSDLDED
		S18	LGLDLSDSDLDEDPP
	VP16	S375	RTKNNYGSTIEGLLD	O'Reilly et al. (1997)
		S411	AGHTRRLSTAPPTDV
		S18	DMNADGASPPPPRPA	Ottosen et al. (2006)
		S353	SYSSFTTSPSEAVMR
		S452	DMLGDGDSPGPGFTP
	UL34	T195*	AITRRRRTRRSREAY	Kato et al. (2005)
		S198*	RRRRTRRSREAYGAE
	UL11	S40	FDVVDIESEEEGNFY	Loomis et al. (2001)
	US3	S147	PPGIRRRSRDEIGAT	Kato et al. (2008)
Human Herpesvirus 2 (HHV-2)	VP22	S28*	ELYYGPVSPADPESP	Geiss et al. (2004)
		S34*	VSPADPESPRDDFRR
	UL13	S118**	TAMTSPPSPPSHILS	Cano-Monreal et al. (2008)
		S121**	TSPPSPPSHILSLAR
Human Herpesvirus 3 (HHV-3 or Varicella Zoster Virus)	glycoprotein E	S593	PVDDFEDSESTDTEE	Kenyon et al. (2002)
		S595	DDFEDSESTDTEEEF
		T596	DFEDSESTDTEEEFG
		T598	EDSESTDTEEEFGNA
	glycoprotein I	S343	LATIREESPPHSVVN	Yao and Grose (1994)
	ICP4 (IE62)	S686*	RTPRKRKSQPVESRS	Eisfeld et al. (2006)
		S722*	SKAKRRVSEPVTITS
		T10	TPPMQRSTPQRAGSP	Leisenfelder et al. (2008)
		S245	QRPAQGKSPKKKTLK
		T680	PPDDRLRTPRKRKSQ
	ICP22 (orf 63)	S165	DDGGEDDSDDDGSTP	Baiker et al. (2004)
		S173	DDDGSTPSDVIEFRD
		S185	FRDSDAESSDGEDFI
		T222	RDGDGCNTPSPKRPQ	Habran et al. (2005)
		S224	GDGCNTPSPKRPQRA
		S186	RDSDAESSDGEDFIV	Mueller et al. (2009)
Human Herpesvirus 4 (HHV-4 or Epstein Barr Virus)	BMRF1	S337*	HTVSPSPSPPPPPRT	Yang et al. (2008)
		T344*	SPPPPPRTPTWESPA
		S349*	PRTPTWESPARPETP
		T355*	ESPARPETPSPAIPS
	BZLF1	S186	RYKNRVASRKCRAKF	Baumann et al. (1998)
		S173	ESLEECDSELEIKRY	El-Guindy and Miller (2004)
		S167	RKPQQPESLEECDSE
		T14	TSEDVKFTPDPYQVP	El-Guindy et al. (2006)
		S209*	EVASAKSSENDRLRL	Asai et al. (2009)
	EBNA-1	S334	GGRGRGGSGGRGRGG	Shire et al. (2006)
		T8	MSDEGPGTGPGNGLG	Duellman et al. (2009)
		T20	GLGEKGDTSGPEGSG
		S21	LGEKGDTSGPEGSGG
		S60	RPGAPGGSGSGPRHR
		S62	GAPGGSGSGPRHRDG
		S78	RRPQKRPSCIGCKGT
		S365	RERARGGSRERARGR
		S383	RGEKRPRSPSSQSSS
		S393	SQSSSSGSPPRRPPP
	EBNA-2	S469	FETTESPSSDEDYVE	Kwiatkowski et al. (2004)
		S243	TELQPTPSPPRMHLP	Yue et al. (2006)
	EBNA-LP	S35	LRRHRSPSPTRGGQE	Yokoyama et al. (2001)
	LMP-1	S313	LPHSPSDSAGNDGGP	Moorthy and Thorley-Lawson (1993)
		T324	DGGPPQLTEEVENKG
		S211	PQQATDDSGHESDSN	Chien et al. (2006)
		S215	TDDSGHESDSNSNEG
	LMP-2A	S15	PMGAGPPSPGGDPDG	Panousis and Rowe (1997)
		S102	GLPPPPYSPRDDSSQ
		Y112	DDSSQHIYEEAGRGS
		Y74	NGDRHSDYQPLGTQD	Fruehling and Longnecker (1997)
		Y85	GTQDQSLYLGLQHDG
		Y64	PPPYEDPYWGNGDRH	Matskova et al. (2007)
Human Herpesvirus 5 (HHV-5 or Human Cytomegalovirus)	glycoprotein B	S900	GYRHLKDSDEEENV-	Jarvis et al. (2004)
	IE1	S399	LATAGVSSSDSLVSP	Reinhardt et al. (2005)
		S402	SSSDSLVSPPESPVP
		S406	SLVSPPESPVPATIP
		S423	SVIVAENSDQEESEQ
		S428	ENSDQEESEQSDEEE
		S431	DQEESEQSDEEEEEG
		S448	EEREDTVSVKSEPVS
		S451	EDTVSVKSEPVSEIE
		S455	SVKSEPVSEIEEVAP
	IE2	T27	SKVPRPETPVTKATT	Harel and Alwine (1998)
		S144	ASATPELSPRKKPRK
		T233	GSGTPRVTSPTHPLS
		S234	SGTPRVTSPTHPLSQ
	pp65	S472	EEDTDEDSDNEIHNP	Pande et al. (1990)
	UL97	S2**	------MSSALRSRA	Baek et al. (2002)
		S3**	-----MSSALRSRAR
		S11**	ALRSRARSASLGTTT
		S13**	RSRARSASLGTTTQG
		T16**	ARSASLGTTTQGWDP
		T18**	SASLGTTTQGWDPPP
		S133**	LRRPVVPSTSSRGSA
		T134**	RRPVVPSTSSRGSAA
		T190**	SVRRALFTGGSDPSD
Human Herpesvirus 6 (HHV-6)	U24	T6	--MDPPRTPPPSYSE	Tait and Straus (2008)
Human Herpesvirus 8 (HHV-8 or Kaposi's Sarcoma Associated Virus)	K-bZip (k8)	T111	PSWTLSHTPPRGPHI	Polson et al. (2001)
		S167	EVCDQSHSPTRKQGR
Human Immunodeficiency Virus 1 (HIV-1)	CAp24 (cleavage product of gag)	S109	SDIAGTTSTLQEQIG	Cartier et al. (1999)
		S149	VRMYSPTSILDIRQG
		S178	TLRAEQASQEVKNWM
	Gag	S111	IEEEQNKSKKKAQQA	Yu et al. (1995)
	Matrix protein (N terminal part of gag)	Y132	SNQVSQNY-------	Gallay et al. (1995)
	Nef	T15	SSVIGWPTVRERMRR	Guy et al. (1987)
		S6	--MGGKWSKSSVIGW	Li et al. (2005)
		S9	GGKWSKSSVIGWPTV
	Rev	S99	SGTQGVGSPQILVES	Malim et al. (1989)
		S5	---MAGRSGDSDEEL	Meggio et al. (1996)
		S8	MAGRSGDSDEELIRT
	Tat	S62	RRRAHQNSQTHQASL	Brand et al. (1997)
		T64	RAHQNSQTHQASLSK
		S68	NSQTHQASLSKQPTS
	Vif	S144	AGHNKVGSLQYLALA	Yang et al. (1996)
		T155	LALAALITPKKIKPP
		T188	KGHRGSHTMNGH---
		T96	WRKKRYSTQVDPELA	Yang and Gabuzda (1998)
		S165	KIKPPLPSVTKLTED
	Vpr	S79	FRIGCRHSRIGVTRQ	Zhou and Ratner (2000)
		S94	RRARNGASRS-----
		S96	ARNGASRS-------
	Vpu	S53	LIERAEDSGNESEGE	Schubert et al. (1992)
		S57	AEDSGNESEGEISAL
		S62	NESEGEISALVEMGV	Estrabaud et al. (2007)
Human Immunodeficiency Virus 2 (HIV-2)	Tat	T85	RKGRRRRTPKKTKAH	Yang et al. (1996)
		T89	RRRTPKKTKAHSSSA
		S94	KKTKAHSSSASDKSI
Human Parainfluenza Virus 1 (HPIV-1)	p protein	S120	RASRRGTSPNPLPEN	Byrappa and Gupta (1999)
		S184	VRRSTPLSDDGEGRT
Human Parainfluenza Virus 3 (HPIV-3)	c protein	S7	-MLKTIKSWILGKRN	Malur et al. (2009)
		S22	QEINQLISPRPSTSL
		S81	DQLTKIDSLGHHTNV
	p protein	S333	RSTRTKESIRTNSES	Huntley et al. (1995)
Human Papillomavirus 8 (HPV-8)	E2	S253	RRYGRRPSSRTRPQK	Sekhar et al. (2009)
Human Papillomavirus 11 (HPV-11)	E1	S89	LKRKYLGSPYVSPIS	Deng et al. (2004)
		S93	YLGSPYVSPISNVAN
		S107	NAVESEISPRLDAIK
	E1^E4	T36	CPPAPRKTACRRRLE	Bryan et al. (2000)
		S44	ACRRRLESEHVDRPL
		T53	HVDRPLTTPCVWPTL
Human Papillomavirus 16 (HPV-16)	E1^E4	S32	PRPIPKPSPWAPKKH	Davy et al. (2006)
		T57	QTPETPATPLSCCTE	Wang et al. (2009)
	E2	T286	INCNSNTTPIVHLKG	Johansson et al. (2009)
	E7	S31	CYEQLNDSSEEEDEI	Barbosa et al. (1990)
		S32	YEQLNDSSEEEDEID
		S71	TLRLCVQSTHVDIRT	Massimi and Banks (2000)
Human Papillomavirus 18 (HPV-18)	E7	S32	LLCHEQLSDSEEEND	Chien et al. (2000)
		S34	CHEQLSDSEEENDEI
Human Respiratory Syncytial Virus (hRSV)	M2-1	S58	DKSIDTLSEISGAAE	Cartee and Wertz (2001)
		S61	IDTLSEISGAAELDR
	p protein	S232	NLLEGNDSDNDLSLE	Dupuy et al. (1999)
		S215	KDTSDEVSLNPTSEK
		S237	NDSDNDLSLDDF---
		S30	SIKGKFTSPKDPKKK	Asenjo et al. (2005)
		S39	KDPKKKDSIISVNSI
		S45	DSIISVNSIDIEVTK
		S54	DIEVTKESPITSNST
		T108	LYKETIETDNNEEES	Asenjo et al. (2006)
Human T-Lymphotropic Virus 1 (HTLV-1)	MA	S105	PAPPPPSSPTHDPPD	Hemonnot et al. (2006)
	Rex	S70	PYWPPVQSIRSPGTP	Adachi et al. (1992)
		S177	LSACTSTSFPPPSPG
		T174	EAPLSACTSTSFPPP
	Tax (p40)	S113	LQAMRKYSPFRNGYM	Krause Boehm et al. (1999)
		T48	HRHALLATCPEHQIT	Durkin et al. (2006)
		T184	GQLGAFLTNVPYKRI
		T215	LPEDCLPTTLFQPAR
		S336	NDHEPQISPGGLEPL
Human T-Lymphotropic Virus 2 (HTLV-2)	Rex	S151	SGISSPPSPSPNLAS	Narayan et al. (2001)
		S153	ISSPPSPSPNLASVP
		T19	ARRNRPPTPWPISQD	Kesic et al. (2009)
		S117	LPLPPLLSPPRFHLP
		S125	PPRFHLPSFNQCEST
		T164	ASVPKTSTPPGEKP-
Influenza A Virus (strain A/Puerto Rico/8/1934 H1N1)	PB1-F2	S35	PKLEHRNSTRLMGHC	Mitzner et al. (2009)
Influenza A Virus (strain A/Udorn/307/1972 H3N2)	M2 protein	S64	HGLKRGPSTEGVPES	Holsinger et al. (1995)
		S82	EYRKEQQSAVDADDS
		S89	SAVDADDSHFVSIEL
		S93	ADDSHFVSIELE---
	NS1	T215	ENGRPPLTPKQKRKM	Hale et al. (2009)
Influenza A Virus (strain A/Victoria/3/75)	NP	S3	-----MASQGTKRSY	Arrese and Portela (1996)
	PA	S157	FTGEGMATKADYTLD	Perales et al. (2000)
Influenza C Virus (strain C/Yamagata/1/88)	CM2	S78	TIMPEIDSMEKDIAL	Li et al. (2001)
		S103	APDETDNSPIPFSND
JC Polyomavirus (JCV)	Agnoprotein (jvgp1)	S7	-MVLRQLSRKASVKV	Sariyer et al. (2006)
		S11	RQLSRKASVKVSKTW
		T21	VSKTWSGTKKRAQRI
	Large T antigen (jvgp5)	T125	NTGSQHSTPPKKKKK	Tyagarajan and Frisque (2006)
Marburg Virus (MARV)	nucleoprotein	S619	MREAYELSPDFTNDE	Lotfering et al. (1999)
	VP30	S40	NYHPRARSMSSTRSS	Modrof et al. (2001)
		S42	HPRARSMSSTRSSAE
Measles Virus (MV)	nucleocapsid protein	S479	PLDIDTASESGQDPQ	Hagiwara et al. (2008)
		S510	GILEEQGSDTDTPRV
	P protein	S86	RGQGSGESDDDAETL	Das et al. (1995)
		S151	GDDESENSDVDIGEP
		S180	ISMGFRASDVETAEG
Nipah Virus (NiV)	P protein	S240	DSIKLYTSDDEEADQ	Shiell et al. (2003)
		S472	NPVDDNDSLDDKYIM
Parainfluenza Virus 5 (PIV-5 or Simian Virus 5)	P protein	S157	ENPIATSSPIDFKRG	Timani et al. (2008)
Rubella Virus (RUBV)	Capsid protein (rubvgp2)	S46	PPRQRDSSTSGDDSG	Law et al. (2006)
Rabies Virus (RV)	N protein	S389	ADDGTVNSDDEDYFS	Dietzschold et al. (1987)
	Phophoprotein	S63	LHLDDEKSSNLGEMV	Gupta et al. (2000)
		S64	HLDDEKSSNLGEMVR
		S162	KETTSAFSQRESQPS
		S210	HQIAESFSKKYKFPS
		S271	GWVALANSKKFQLLV
Rift Valley Fever Virus (RVFV)	NS protein	S252	IPDVEMESEEESDDD	Kohl et al. (1999)
		S256	EMESEEESDDDGFVE
Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV)	N protein	S177	KGFYAEGSRGGSQAS	Wu et al. (2009)
		T27	KRQDGQQTPKLEHRN
Semliki Forest Virus (SFV)	nsP3	S327	SPRKYAASTTDHSDR	Vihinen and Saarinen (2000)
		S332	AASTTDHSDRSLRGF
		S335	TTDHSDRSLRGFDLD
		S356	STASDTMSLPSLQSC
		S359	SDTMSLPSLQSCDID
		S362	MSLPSLQSCDIDSIY
		S367	LQSCDIDSIYEPMAP
		T344	RGFDLDWTTDSSSTA	Vihinen et al. (2001)
		T345	GFDLDWTTDSSSTAS
		S320	PTVPSVVSPRKYAAS
Simian Rotavirus SA11 (SiRV-A/SA11)	NSP5	S154	YPRIEAESDSDDYVL	Eichwald et al. (2002)
		S156	RIEAESDSDDYVLDD
		S164	DDYVLDDSDSDDGKC
		S166	YVLDDSDSDDGKCKN
		S67	IGPSDSASNDPLTSF	Eichwald et al. (2004)
Simian Virus 40 (SV40)	Large T antigen	S106	NEENLFCSEEMPSSD	Scheidtmann et al. (1991)
		S112	CSEEMPSSDDEATAD
		S120	DDEATADSQHSTPPK
		S123	ATADSQHSTPPKKKR
		T124	TADSQHSTPPKKKRK
		S639	SDDDDEDSQENADKN
		S677	SFQAPQSSQSVHDHN
		S679	QAPQSSQSVHDHNQP
		T701	TCFKKPPTPPPEPET
		S111	FCSEEMPSSDDEATA	Chen et al. (1991)
		S665	GHETGIDSQSQGSFQ
		S667	ETGIDSQSQGSFQAP
		S670	IDSQSQGSFQAPQSS
Vaccinia Virus (VACV)	A13	S40	NPSPNLNSPPPEPKN	Unger and Traktman (2004)
	A14	S85	GVIHTNHSDISMN--	Mercer and Traktman (2003)
	H5R	T84*	VIEEYHQTTEKNSPS	Brown et al. (2000)
		T85*	IEEYHQTTEKNSPSP
	IEV transmembrane phosphoprotein (A36R)	Y112	APSTEHIYDSVAGST	Frischknecht et al. (1999)
		Y132	DRNEQTIYQNTTVVI
	IMV membrane protein (A17)	Y203	NSLNTDDY-------	Derrien et al. (1999)
Vesicular Stomatitis Indiana Virus (VSV Indiana serotypes)	M protein	T31	PPPYEEDTSMEYAPS	Kaptur et al. (1995)
	P protein	S60	YFQAADDSDTESEPE	Jackson et al. (1995)
		T62	QAADDSDTESEPEIE
		S64	ADDSDTESEPEIEDN
		S227	SLDELFSSRGEFISV	Gao and Lenard (1995)
		S233	SSRGEFISVGGDGRM
Vesicular Stomatitis New Jersey Virus (VSV New Jersey serotype)	P protein	S59	YYQEEESSDSDTDYN	Takacs et al. (1992)
		S61	QEEESSDSDTDYNAE
Yellow Fever Virus (YFV)	NS5	S56	VDTGVAVSRGTAKLR	Bhattacharya et al. (2008)
		T450	HQQGRCRTCVYNMMG	Bhattacharya et al. (2009)

* denotes a phosphorylation site by a virally encoded kinase

**denotes an autophosphorylation site on a virally encoded kinase