This table gives interactive access to the complete predicted structures of all 9 human herpesvirus using the following proteomes: HSV-1 strain 17 (UP000009294), HSV-2 strain HG52 (UP000001874), VZV strain Dumas (UP000002602), HCMV strain Merlin (UP000000938), HHV-6A isolate U1102 (NC_001664), HHV-6B strain Z29 (NC_000898), HHV-7 strain RK (NC_001716), EBV strain B95-8 (UP000153037) as well as KSHV strain GK18 (UP000000942) .

For simplicity, we have excluded ColabFold predictions of two more animal model herpesviruses (PRV and MHV-68). You can find the full list here.

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Please use the search field on the right for super-fast access to the database. You can enter the gene name, protein name, description key word, or structure group key word.

Each row of the table shows the known homologous relationships between viruses (Human Herpesviruses: Biology, Therapy, and Immunoprophylaxis by Edward S. Mocarski Jr.).

We have used FoldSeek to cluster all human herpesvirus protein predictions into structural similarity clusters. These clusters encompass new connections between proteins, and each was given a “Structure Group” name to describe the most similar cellular (i.e. dihydrofolate reductase) or viral protein (i.e. tegument protein 3). For particularly large groups, a second part was added to the name to denote the subcluster based on a protein (i.e. immunoglobulin glycoprotein_RL11) or number of domains (i.e. US22_4).

Searching a “Structure Group” name will display proteins that were found to be structurally similar. The following proteins failed the quality scores and were therefore not found in the associated “Structure Group”: HCMV_UL44, HHV-6A_U44, HSV-2_UL36, and HSV-2_UL51.

For help evaluating the predictions, please check this quick tutorial.

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All predictions as well as accompanying data for our upcoming HerpesFolds manuscript is available at:

Soh, T., & Bosse, J. (2024). HerpesFolds: A proteome-wide structural systems approach reveals insights into protein families and activities of all nine human herpesviruses. Zenodo. https://doi.org/10.5281/zenodo.13284140

Structure Group	Protein	Description	HSV-1	HSV-2	VZV	HCMV	HHV-6A	HHV-6B	HHV-7	EBV	KSHV
alkaline nuclease	AN	Alkaline nuclease	UL12 P04294	UL12 P89435	ORF48 P09253	UL98 F5HF49	U70 P24447	U70 P52448	U70 Q77Y54	BGLF5 P03217	ORF37 Q2HR95
alkaline nuclease	AN	Alkaline nuclease (isoform 12.5)	UL12_UL12.5 P04294
	ARBH	Apoptosis regulator Bcl-2 homolog (vBcl-2)									ORF16 F5HGJ3
	B1	Protein B1						B1 Q9PX69
	B2	Protein B2						B2 Q9PX71
	B3	Protein B3						B3 Q9PX43
	B4	Protein B4						B4 Q9QJ59
	B5	Protein B5						B5 Q9QJ58
	B6	Protein B6						B6 Q96895
	B7	Protein B7						B7 Q69066
	B8	Protein B8						B8 Q9QJ13
	B9	Protein B9						B9 Q9QJ10
	CCU83	Putative CC-type chemokine U83					U83 P52460	U83 P52461
cytoplasmic envelopment protein 1	CEP1	Cytoplasmic envelopment protein 1	UL7 P10191	UL7 P89430	ORF53 P09301	UL103 F5HA10	U75 P52456	U75 P52457	U75 Q77Y50	BBRF2 P29882	ORF42 F5HAI6
cytoplasmic envelopment protein 2	CEP2	Cytoplasmic envelopment protein 2	UL16 P10200	UL16 P89439	ORF44 P09293	UL94 F5HAC7	U65 P24442	U65 Q9QJ19	U65 O56292	BGLF2 P0CK53	ORF33 F5HEF2
	CEP3	Cytoplasmic envelopment protein 3	UL11 P04289	UL11 P13294	ORF49 P09297	UL99 F5HI87	U71 P24448	U71 P52459	U71 Q77Y53	BBLF1 P0CK51	ORF38 F5HHY1
capsid vertex component 1	CVC1	Capsid vertex component 1	UL17 P10201	UL17 P89440	ORF43 P09292	UL93 Q6SW50	U64 P24441	U64 Q9QJ20	U64 O56291	BGLF1 P03222	ORF32 F5HB39
capsid vertex component 2	CVC2	Capsid vertex component 2	UL25 P10209	UL25 P89448	ORF34 P09287	UL77 Q6SW65	U50 P52387	U50 P52537	U50 O56285	BVRF1 P03233	ORF19 Q2HRB3
	CXCL1	Chemokine vCXCL1				UL146 F5HBX1
major DNA-binding protein	DBP	Major DNA-binding protein	UL29 P04296	UL29 P89452	ORF29 P09246	UL57 F5HDQ6	U41 P52338	U41 P52538	U41 O56282	BALF2 P03227	ORF6 Q2HRD3
DNA polymerase and helicase/primase	DPOL	DNA polymerase	UL30 P04293	UL30 P89453	ORF28 P09252	UL54 Q6SW77	U38 P28857	U38 Q9QJ32	U38 O92827	BALF5 P03198	ORF9 Q2HRD0
US22_2	DR1	Uncharacterized protein DR1					DR1 Q89746	DR1 Q9PWX1	DR1 O57297
	DR3	Uncharacterized protein DR3						DR3 Q9PX32
US22_2	DR6	Uncharacterized protein DR6					DR6 Q89584	DR6 Q9PX53	DR6 O57302
DUT_2	DUT	Deoxyuridine 5'-triphosphate nucleotidohydrolase (dUTPase) (dUTP pyrophosphatase)	UL50 P10234	UL50 P89469	ORF8 P09254	UL72 Q6SW70	U45 Q06095	U45 P52541	U45 Q77Y69	BLLF3 P03195	ORF54 Q2HR78
dihydrofolate reductase-like	DYR	Putative Dihydrofolate reductase									ORF2 Q2HRC6
	EAR	Apoptosis regulator BHRF1 (Early antigen protein R) (EA-R) (Nuclear antigen)								BHRF1 P03182
UL45	EV45	Envelope protein UL45 (18 kDa protein)	UL45 P10229	UL45 P89465
gB	gB	Envelope glycoprotein B (gB)	UL27 P10211	UL27 P08666	ORF31 P09257	UL55 F5HB53	U39 P28864	U39 P36320	U39 O56280	BALF4 P03188	ORF8 F5HB81
immunoglobulin glycoprotein_RL11	gC	Envelope glycoprotein C (gC)	UL44 P10228	UL44 Q89730	ORF14 P09256
immunoglobulin glycoprotein_RL11	gC	Envelope glycoprotein C (isoform gCsec)	UL44_gCsec P10228
immunoglobulin glycoprotein_RL11	gD	Envelope glycoprotein D (gD)	US6 Q69091	US6 Q69467
immunoglobulin glycoprotein_RL11	gE	Envelope glycoprotein E (gE)	US8 P04488	US8 P89475	ORF68 P09259
immunoglobulin glycoprotein_RL11	gG	Envelope glycoprotein G (gG)	US4 P06484	US4 P13290
gH	gH	Envelope glycoprotein H (gH)	UL22 P06477	UL22 P89445	ORF37 P09260	UL75 Q6SW67	U48 P68324	U48 P52543	U48 O56284	BXLF2 P03231	ORF22 F5HAK9
immunoglobulin glycoprotein_RL11	gI	Envelope glycoprotein I (gI)	US7 P06487	US7 P13291	ORF67 P09258
gJ	gJ	Envelope glycoprotein J (gJ)	US5 P06480	US5 P13293
gK	gK	Envelope glycoprotein K (gK) (Syncytial protein)	UL53 P68331	UL53 P22485	ORF5 P09261
gL betaherpes, gL alphaherpes	gL	Envelope glycoprotein L (gL)	UL1 P10185	UL1 P28278	ORF60 P09308	UL115 F5HCH8	U82 P52508	U82 P52526	U82 O56297	BKRF2 P03212	ORF47 F5HDB7
gM	gM	Envelope glycoprotein M (gM)	UL10 P04288	UL10 P89433	ORF50 P09298	UL100 Q6SW43	U72 Q04630	U72 P52449	U72 Q77Y52	BBRF3 P03215	ORF39 F5HDD0
gN	gN	Envelope glycoprotein N (gN)	UL49A O09800	UL49A Q86539	ORF9A Q65ZG0	UL73 F5HHQ0	U46 Q06094	U46 P52547	U46 Q77Y68	BLRF1 P03196	ORF53 F5HFQ0
	gO	Envelope glycoprotein O (gO)				UL74 F5HGP1	U47 Q06093	U47 P52549	U47 Q77Y67
	GP350	Envelope glycoprotein GP350 (Membrane antigen) (MA)								BLLF1 P03200
immunoglobulin glycoprotein_RL11	GP350	Envelope glycoprotein GP350 (Membrane antigen) (MA) (isoform GP220)								BLLF1_GP220 P03200
	GP42	Glycoprotein 42 (gp42) [Cleaved into: Soluble gp42]								BZLF2 P03205
	gQ1	Glycoprotein Q1 (gQ1)					U100 Q69572	U100 Q9QJ11	U100 O56304
DNA helicase	HELI	DNA replication helicase	UL5 P10189	UL5 P28277	ORF55 P09303	UL105 F5HEN8	U77 P52356	U77 P52450	U77 O56295	BBLF4 P03214	ORF44 Q2HR89
DNA polymerase and helicase/primase	HEPA	DNA helicase/primase complex-associated protein (HEPA) (Primase-associated factor)	UL8 P10192	UL8 P89431	ORF52 P09300	UL102 F5HIG1	U74 P52375	U74 P52451	U74 Q77Y51	BBLF2 P30118	ORF40 Q2HR92
	ICP0	E3 ubiquitin-protein ligase ICP0 (Alpha-0 protein) (Immediate-early protein IE110) (RING-type E3 ubiquitin transferase ICP0) (Trans-acting transcriptional protein ICP0) (VMW110)	RL2 P08393	RL2 P28284
infected cell protein 22	ICP22	Transcriptional regulator ICP22 (Immediate-early protein IE68) (Infected cell protein 22) (ICP22)	US1 P04485	US1 P89474	ORF63 P09255
infected cell protein 22	ICP22	Transcriptional regulator ICP22 (Immediate-early protein IE68) (Infected cell protein 22) (ICP22) (isoform US1.5)	US1_US1.5 P04485
infected cell protein 27	ICP27	mRNA export factor ICP27 (Immediate-early protein IE63) (Infected cell protein 27) (ICP27) (VMW63)	UL54 P10238	UL54 P28276	ORF4 P09269	UL69 Q6SW73	U42 P52354	U42 P52539	U42 O56283	BSLF2 Q04360	ORF57 Q2HR75
	ICP34	Neurovirulence factor ICP34.5 (Infected cell protein 34.5)	RL1 P36313	RL1 P28283
uracil-DNA glycosylase	ICP4	Major viral transcription factor ICP4 (Alpha-4 protein) (Infected cell protein 4) (Transcriptional activator IE175)	RS1 P08392	RS1 P90493	ORF62 P09310
	ICP47	ICP47 protein (Immediate-early protein IE12) (Immediate-early-5) (Infected cell protein 47) (US12 protein) (Vmw12)	US12 P03170	US12 P14345
	IE1	Immediate-early protein 1 (IE1) (Protein RF2/RF3/RF4) (pRF2/pRF3/pRF4)					U90_U89 Q69567
DNA binding-like	IE2	Immediate-early protein 2 (IE2)					U86 Q77Z83	U90_U86 Q9QJ16
	IE61	E3 ubiquitin-protein ligase IE61 (EC 2.3.2.27) (Immediate-early protein 61) (IE61) (RING-type E3 ubiquitin transferase IE61)			ORF61 P09309
viral interleukin-10	IL10H	Viral interleukin-10 homolog (cmvIL-10) (vIL-10)				UL111A F5HC71				BCRF1-IL10H P03180
inner tegument protein	ITP	Inner tegument protein	UL37 P10221	UL37 P89460	ORF21 P09277	UL47 Q6SW85	U30 P52437	U30 Q9QJ38	U30 Q77Y77	BOLF1 P03189	ORF63 F5HEU7
	KBZIP	E3 SUMO-protein ligase K-bZIP (E3 SUMO-protein transferase K-bZIP)								BZLF1 P03206	K8 Q2HR82
	KCP	Complement control protein (KCP)									ORF4 Q2HRD4
thymidine kinase	KITH	Thymidine kinase	UL23 P0DTH5	UL23 P89446	ORF36 P09250					BXLF1 P03177	ORF21 F5HB62
DNA binding-like	LANA1	Immediate-early protein LANA1									ORF73 Q9QR71
DUT_3	LF1	Protein LF1								LF1 Q8AZJ5
DUT_3	LF2	Protein LF2								LF2 P0C725
immunoglobulin glycoprotein_RL11	LMP1	Latent membrane protein 1 (LMP-1) (Protein p63)								LMP1 P03230	K1 Q2HRD5
latent membrane protein 2	LMP2	Latent membrane protein 2 (Terminal protein)								LMP2 P13285	K15 Q9QR69
latent membrane protein 2	LMP2	Latent membrane protein 2 (Terminal protein) (isoform LMP2B)								LMP2_LMP2B P13285
large tegument protein	LTP	Large tegument protein deneddylase	UL36 P10220	UL36 P89459	ORF22 P09278	UL48 Q6SW84	U31 P52340	U31 Q9QJ37	U31 O56278	BPLF1 P03186	ORF64 Q2HR64
	M1	M1 protein (Serpin) (Serpin-1-like protein)
	M2	Herpesvirus type 68 DNA for tRNA-like sequences and ORF1, ORF2 and ORF3 (M2) (Uncharacterized protein M2)
	M3	M3 (M3 protein)
	M4	M4 (Uncharacterized protein M4)
	M7	51 protein (Glycoprotein 150) (M7) (Serine threonine rich glycoprotein)
equilibrative nucleoside transporter-like	MB43	Membrane protein UL43	UL43 P10227	UL43 P89464	ORF15 P09273
major capsid protein	MCP	Major capsid protein (MCP)	UL19 P06491	UL19 P89442	ORF40 P09245	UL86 F5HGT1	U57 P17887	U57 Q9QJ26	U57 Q77Y62	BcLF1 P03226	ORF25 Q2HRA7
RING-type E3 ubiquitin transferase	MIR1	E3 ubiquitin-protein ligase MIR1 (IE1B protein) (Modulator of immune recognition 1) (ORF K3) (RING-type E3 ubiquitin transferase MIR1)									K3 P90495
RING-type E3 ubiquitin transferase	MIR2	E3 ubiquitin-protein ligase MIR2 (IE1A protein) (Modulator of immune recognition 2) (ORF K5) (RING-type E3 ubiquitin transferase MIR2)									K5 P90489
major tegument protein	MTP	Major tegument protein (MTP)								BNRF1 P03179	ORF75 Q9QR70
nuclear egress protein 1	NEC1	Nuclear egress protein 1	UL31 P10215	UL31 P89454	ORF27 P09283	UL53 F5HFZ4	U37 P28865	U37 Q9WT27	U37 O56279	BFLF2 P0CK47	ORF69 F5H982
nuclear egress protein 2	NEC2	Nuclear egress protein 2	UL34 P10218	UL34 P89457	ORF24 P09280	UL50 Q6SW81	U34 P52465	U34 Q9QJ35	U34 Q77Y74	BFRF1 P03185	ORF67 F5HA27
DNA binding-like	NP03	Nuclear phosphoprotein UL3	UL3 P10187	UL3 P28279	ORF58 P09306
DNA replication	NP04	Nuclear protein UL4	UL4 P10188	UL4 P28280	ORF56 P09304
origin-binding protein	OBP	Replication origin-binding protein (OBP) (OriBP)	UL9 P10193	UL9 P89432	ORF51 P09299		U73 P52378	U73 P52452	U73 O56293
	ORF0	Membrane protein 0 (Membrane ORF0 protein) (ORF S/L)			ORF0 Q6F6K2
	ORF1	Structural protein 1 (Structural ORF1 protein)			ORF1 P09266
DUT_3	ORF10	Protein ORF10									ORF10 Q2HRC9
DUT_3	ORF11	Protein ORF11									ORF11 Q2HRC8
US22_1	ORF2	Membrane protein 2 (Membrane ORF2 protein)			ORF2 P09267
ORF27 glycoprotein	ORF27	Protein ORF27								BDLF2 P03225	ORF27 F5HDY6
	ORF28	Protein ORF28								BDLF3 P03224	ORF28 F5HI25
	ORF32	Phosphoprotein 32 (ORF32 Phosphoprotein)			ORF32 P09285
tegument protein 3	ORF35	Protein ORF35								BGLF3.5 Q2MG96	ORF35 F5HCD4
	ORF45	Protein ORF45								BKRF4 P30117	ORF45 F5HDE4
capsid phosphoprotein	ORF48	Tegument protein ORF48								BRRF2 P03210	ORF48 Q2HR85
transcriptional activator	ORF49	Protein ORF49								BRRF1 P03207	ORF49 Q2HR83
replication and transcription activator	ORF50	Replication and transcription activator (Rta) (Immediate-early protein Rta) (Protein R)								BRLF1 P03209	ORF50 F5HCV3
cGAS inhibitor	ORF52	Tegument protein ORF52 (Kaposi's sarcoma-associated herpesvirus inhibitor of cGAS) (KicGAS)								BLRF2 P03197	ORF52 Q2HR80
	ORF57	Uncharacterized protein 57 (Uncharacterized ORF57 protein)			ORF57 P09305
equilibrative nucleoside transporter-like	ORF58	Protein ORF58								BMRF2 P03192	ORF58 F5HAD1
immunoglobulin glycoprotein_RL11	OX2V	OX-2 membrane glycoprotein homolog (Viral OX2) (vOX2)					U85 Q89738	U85 Q9QJ17	U85 O56299		K14 P0C788
capsid phosphoprotein	P100	Large structural phosphoprotein (100 kDa phosphoprotein) (pp100) (Major antigenic structural protein)					U11 Q00701	U11 Q69535	U11 O56271
serine/threonine-protein kinase	PK	Serine/threonine-protein kinase US3	US3 P04413	US3 P13287	ORF66 P09251
portal protein	PORTL	Portal protein	UL6 P10190	UL6 P89429	ORF54 P09302	UL104 F5HBR4	U76 P52453	U76 P52454	U76 O56294	BBRF1 P03213	ORF43 F5HGK9
capsid phosphoprotein	PP150	Tegument protein pp150				UL32 Q6SW99
DUT_3	PP65	65 kDa phosphoprotein (pp65) (65 kDa matrix phosphoprotein) (Phosphoprotein UL83) (Tegument protein UL83)				UL83 Q6SW59
DUT_3	PP71	Protein pp71				UL82 F5HBC6
capsid phosphoprotein	PP85	Phosphoprotein 85 (pp85)				UL25 F5HGJ4	U14 Q69549	U14 Q9QJ49	U14 O56273
DNA primase	PRIM	DNA primase	UL52 P10236	UL52 P89471	ORF6 P09270	UL70 F5HG51	U43 P52467	U43 P52540	U43 Q77Y71	BSLF1 P03193	ORF56 F5HIN0
ribonucleoside-diphosphate reductase small subunit 1	RIR1	Ribonucleoside-diphosphate reductase large subunit (R1) (Ribonucleotide reductase large subunit)	UL39 P08543	UL39 P89462	ORF19 P09248	UL45 Q6SW87	U28 P52343	U28 Q9QJ39	U28 Q77Y78	BORF2 P03190	ORF61 Q2HR67
ribonucleoside-diphosphate reductase small subunit 2	RIR2	Ribonucleoside-diphosphate reductase small subunit (R2) (Ribonucleotide reductase small subunit)	UL40 P10224	UL40 P69521	ORF18 P09247					BaRF1-RIR2 P0CAP6	ORF60 F5HAW0
	RNB	RNA-binding protein	US11 P04487	US11 P89479
	SCAF	Capsid scaffolding protein (Capsid protein P40) (Protease precursor) (pPR) (isoform UL80.3)				UL80_UL80.3 Q6SW62
	SCAF	Capsid scaffolding protein (Capsid protein P40) (Protease precursor) (pPR) (isoform UL80.4)				UL80_UL80.4 Q6SW62
scaffold	SCAF	Capsid scaffolding protein (Capsid protein P40) (Protease precursor) (pPR) (Virion structural protein UL26)	UL26 P10210	UL26 P89449	ORF33 P09286	UL80 Q6SW62	U53 P24433	U53 Q9QJ30	U53 O56287	BVRF2 P03234	ORF17 Q2HRB6
	SCAF	Capsid scaffolding protein (Capsid protein P40) (Protease precursor) (pPR) (Virion structural protein UL26) (isoform pAP)	UL26_pAP P10210	UL26_pAP P89449	ORF33_pAP P09286	UL80_pAP Q6SW62				BVRF2_pAP P03234	ORF17_pAP Q2HRB6
small capsomere-interacting protein gammaherpes, small capsomere-interacting protein alphaherpes, small capsomere-interacting protein betaherpes	SCP	Small capsomere-interacting protein	UL35 P10219	UL35 P89458	ORF23 P09279	UL48A F5HEN7	U32 Q69560	U32 Q9WT32	U32 Q77Y76	BFRF3 P14348	ORF65 Q2HR63
virion host shutoff protein	SHUT	Virion host shutoff protein (Vhs)	UL41 P10225	UL41 P68340	ORF17 P09275
tegument protein 1	TEG1	Tegument protein UL46 (Tegument protein VP11/12)	UL46 P10230	UL46 P89466	ORF12 P09264
tegument protein 3	TEG3	Tegument protein UL14	UL14 P04291	UL14 P89437	ORF46 P09295
tegument protein 4	TEG4	Tegument protein UL21	UL21 P10205	UL21 P89444	ORF38 P09289	UL88 F5H9F9	U59 P24438	U59 Q9QJ24	U59 Q77Y61	BTRF1 P30119	ORF23 F5HIM6
tegument protein 5	TEG5	Tegument protein UL47 (82/81 kDa tegument protein) (VMW82/81) (VP13/14)	UL47 P10231	UL47 P89467	ORF11 P09263
nuclear compartments	TEG6	Tegument protein UL55	UL55 P10239	UL55 P28281	ORF3 P09268
tegument protein 7	TEG7	Tegument protein UL51	UL51 P10235	UL51 P89470	ORF7 P09271	UL71 F5HEA3	U44 P52473	U44 P52546	U44 Q77Y70	BSRF1 P0CK49	ORF55 F5H9W9
tripartite terminase subunit 1	TRM1	Tripartite terminase subunit 1	UL28 P10212	UL28 P89451	ORF30 P09284	UL56 F5HC79	U40 P52384	U40 P52544	U40 O56281	BALF3 P25939	ORF7 Q2HRD2
tripartite terminase subunit 2	TRM2	Tripartite terminase subunit 2	UL33 P10217	UL33 P89456	ORF25 P09281	UL51 F5HGI9	U35 Q69561	U35 Q9QJ34	U35 Q77Y73	BFRF1A A0A1P7U110	ORF67A F5H9W4
tripartite terminase subunit 3	TRM3	Tripartite terminase subunit 3 (Terminase large subunit)	UL15 P04295	UL15 P89438	ORF42 P09294	UL89 F5HCU8	U60 M9TIH1	U66 Q9QJ23	U60 Q77Y60	BGRF1-BDRF1 P03219	ORF29 F5HGB6
US22_2	TRS1	Protein TRS1				TRS1 Q6SVX2
triplex capsid protein 1	TRX1	Triplex capsid protein 1	UL38 P32888	UL38 P89461	ORF20 P09276	UL46 F5HA93	U29 P52348	U29 Q9WT35	U29 O56277	BORF1 P03187	ORF62 F5H8Y5
triplex capsid protein 2	TRX2	Triplex capsid protein 2	UL18 P10202	UL18 P89441	ORF41 P09291	UL85 F5HIN9	U56 P24436	U56 Q9QJ27	U56 Q77Y63	BDLF1 P25214	ORF26 F5HGN8
thymidylate synthase	TYSY	Thymidylate synthase (TS) (TSase)			ORF13 P09249						ORF70 P90463
DUT_3	U10	Protein U10					U10 Q01348	U10 Q9WT54	U10 Q77Y89
viral G-protein coupled receptor	U12	G-protein coupled receptor homolog U12					U12 P52380
	U13	Protein U13					U13 Q69548	U13 Q9QJ50	U13 Q77Y88
	U15	Protein U15					U15 Q69550	U15 Q9QJ48	U15 O56274
	U16/U17	Protein U16/U17					U17_U16 Q69552
US22_2	U17	Protein U17					U17 Q69552	U17 Q9QJ47	U17 Q77Y87
immunoglobulin glycoprotein_UL18	U18	Putative immediate early glycoprotein (Protein U18)					U18 Q69553	U18 Q9WT46	U18 Q77Y86
US22_2	U2	Protein U2					U2 M9TI14	U2 Q9QJ57	U2 O56269
	U20	Glycoprotein U20					U20 Q69555	U20 Q9QJ46	U20 Q77Y84
immunoglobulin glycoprotein_UL18	U21	Glycoprotein U21					U21 Q69556	U21 Q9QJ45	U21 T2C937
	U22	Glycoprotein U22					U22 Q69557	U22 Q9QJ44
	U23	Glycoprotein U23					U23 Q69558	U23 Q9QJ43	U23 Q77Y82
U24 protein	U24	Protein U24					U24 Q69559	U24 Q9QJ42	U24 Q77Y81
U24A protein	U24A	Protein U24A (U24A) (U24A protein)					U24A M9TND7	U24A Q9QJ41	U24A O56275
	U47A	Envelope glycoprotein 24 (U47A protein)					U47A M9TG17
	U53.5	Capsid scaffold protein (U53.5 protein)					U53.5 A0A0A7RM03
	U6	Uncharacterized protein U6						U6 Q9QJ53
DNA replication	U79	Protein U79/U80					U79_UL80 P52529	U79 P52530	U79 O56296
DNA binding-like	U86	Immediate-early protein							U86 O56300
DNA binding-like	U87						U90_U87U86 Q77Z83
	U90	Immediate-early protein U90						U90 Q77PU6	U90 O56301
	U91	Protein U91					U91 Q69569	U91 Q9QJ14	U91 O56302
US22_2	U95	Uncharacterized protein U95					U95 Q89882	U95 Q9QJ12	U95 O56303
DNA replication	UL112-113	Early phosphoprotein isoform p34				UL112-113_p34 Q6SW37
DNA replication	UL112-113	Early phosphoprotein isoform p43				UL112-113_p43 Q6SW37
DNA replication	UL112-113	Early phosphoprotein isoform p50				UL112-113_p50 Q6SW37
DNA replication	UL112-113	Early phosphoprotein p84				UL112-113 Q6SW37
virion morphogenesis and cell fusion	UL20	Protein UL20	UL20 P10204	UL20 P89443	ORF39 P09290
nucleolin dispersal-like	UL24	Protein UL24	UL24 P10208	UL24 P89447	ORF35 P09288	UL76 Q6SW66	U49 Q06092	U49 P52545	U49 Q77Y66	BXRF1 P03232	ORF20 Q2HRB2
	UL3	UL3 protein
UL32 packaging protein	UL32	Packaging protein UL32	UL32 P10216	UL32 P89455	ORF26 P09282	UL52 Q6SW79	U36 P52463	U36 Q9QJ33	U36 Q77Y72	BFLF1 P03184	ORF68 F5HF47
US22_1	UL38	Apoptosis inhibitor				UL38 F5HG98	U19 Q69554	U19 Q9WT45	U19 Q77Y85
UL49 viral transcriptional activator	UL49	vTA protein UL49				UL49 Q6SW82	U33 P52441	U33 Q9QJ36	U33 Q77Y75	BFRF2 P14347	ORF66 F5HG20
	UL56	Protein UL56	UL56 P10240	UL56 P28282
UL79 viral transcriptional activator	UL79	vTA protein UL79				UL79 Q6SW63	U52 P52469	U52 P52548	U52 O56286	BVLF1 Q2MG95	ORF18 Q2HRB4
UL87 viral transcriptional activator	UL87	vTA protein UL87				UL87 Q6SW55	U58 P24437	U58 Q9QJ25	U58 O56290	BcRF1-UL87 P25215	ORF24 F5HFD2
U62 viral transcriptional activator	UL91	vTA protein UL91				UL91 F5HFJ8	U62 P24439	U62 Q9QJ22	U62 Q77Y59		ORF30 F5HES7
UL92 viral transcriptional activator	UL92	vTA protein UL92				UL92 F5HAS7	U63 P24440	U63 Q9QJ21	U63 Q77Y58	BDLF4 P0CK56	ORF31 Q2HRA1
UL95 viral transcriptional activator	UL95	vTA protein UL95				UL95 Q6SW48	U67 P24444	U67 Q9WT06	U67 Q77Y57	BGLF3 P03220	ORF34 Q2HR98
U68 protein	UL96	Protein U68					U68 P24445	U68 Q9QJ18	U68 Q77Y56
uracil-DNA glycosylase	UNG	Uracil-DNA glycosylase (UDG) (UNG)	UL2 P10186	UL2 P28275	ORF59 P09307	UL114 F5HI85	U81 P52345	U81 P52447	U81 Q77Y49	BKRF3 P12888	ORF46 F5HFA1
dihydrofolate reductase-like	US02	Protein US2	US2 P06485	US2 P13292
US10 capsid associated	US10	Virion protein US10	US10 P06486	US10 P89478	ORF64 P09311
	US8.5/US8A	Protein US8.5	US8.5 O09802	US8A P89476
anterograde transport membrane protein	US9	Envelope protein US9 (10 kDa protein)	US9 P06481	US9 P89477	ORF65 P09312
	V57
viral chemokine	VCCL3	Protein vCCL3									K4.1 F5HCJ2
	VCYCL	viral cyclin homolog (v-cyclin)									ORF72 Q77Q36
	VFLIP	Viral FLICE protein (vFLIP)									ORF71 F5HEZ4
immunoglobulin glycoprotein_UL18	VGLI	UL37 immediate early glycoprotein				UL37 Q6SW94
immunoglobulin glycoprotein_UL18	VGLI	UL37 immediate early glycoprotein (isoform pUL37m)				UL37_pUL37m Q6SW94
	VGLI	UL37 immediate early glycoprotein (isoform vMIA)				UL37_vMIA Q6SW94
viral G-protein coupled receptor	vGPCR	Viral G-protein coupled receptor						U12 Q9QJ51	U12 O56272	BILF1 P03208	ORF74 Q98146
US22_2	VICA	Viral inhibitor of caspase-8-induced apoptosis (vICA)				UL36 F5HAY6
DNA binding-like	VIE1	Immediate early protein IE1 (IE1) (55 kDa immediate-early protein 1) (IE1p72) (IE72)				UL123 F5HCM1
DNA binding-like	VIE2	Viral transcription factor IE2 (IE2) (Protein UL122)				UL122 Q6SW29
	VIL6	Viral interleukin-6 homolog (vIL-6)									K2 Q2HRC7
viral interferon regulatory factor	VIRF1	VIRF-1									K9 F5HF68
viral interferon regulatory factor	VIRF2	Viral IRF2-like protein (vIRF-2)									K11.1 Q2HR71
viral interferon regulatory factor	VIRF3	Viral IRF3-like protein (VIRF-3)									K10.2 F5HIC6
viral interferon regulatory factor	VIRF4	Viral IRF4-like protein (vIRF-4)									K10.1 Q2HR73
viral chemokine	VMI2	Viral macrophage inflammatory protein 2 (Viral macrophage inflammatory protein II) (vMIP-II) (vMIP-1B)									K4 Q98157
VP16	VP16	Tegument protein VP16 (Alpha trans-inducing protein) (Alpha-TIF) (ICP25) (Vmw65)	UL48 P06492	UL48 P68336	ORF10 P09265
VP22	VP22	Tegument protein VP22	UL49 P10233	UL49 P89468	ORF9 P09272
PCNA	vPAP	DNA polymerase processivity factor (Polymerase accessory protein) (PAP)	UL42 P10226	UL42 P89463	ORF16 P09274	UL44 F5HC97	U27 P52439	U27 Q9QJ40	U27 Q77Y79	BMRF1 P03191	ORF59 F5HID2
serine/threonine-protein kinase	VPK	Viral serine/threonine-protein kinase (Virion protein VMW57)	UL13 P04290	UL13 P89436	ORF47 P09296	UL97 Q6SW46	U69 P24446	U69 P52446	U69 Q77Y55	BGLF4 P13288	ORF36 F5HGH5
US22_2	VU25	Protein U25					U25 P52527	U25 Q9WT39	U25 Q77Y80
	VU26	Protein U26					U26 P52444	U26 Q9WT38	U26 O56276
US22_2	VU3	Protein U3					U3 Q01350	U3 Q9QJ56	U3 Q77Y92
US22_0	VU4	Protein U4					U4 Q01351	U4 Q9QJ55	U4 Q77Y91
viral G-protein coupled receptor	VU51	G-protein coupled receptor homolog U51					U51 P52382	U51 P52542	U51 Q77Y65
DUT_3	VU54	Protein U54					U54 P24434	U54 Q9QJ29	U54 O56288
DUT_3	VU55	Uncharacterized protein U55					U55 P24435	U55 Q9QJ28
US22_4, US22_2	VU7	Protein U7					U7 Q01353	U7 Q9QJ54	U7 O56270
US22_2	VU8	Protein U8						U8 Q9QJ52
DNA binding-like	VU84	Protein U84					U84 P52532	U84 P52533	U84 O56298
	VU9	Protein U9						U9 Q9WT55
DNA helicase-like	VU94	Protein U94					U94 Q00683	U94 Q9WSZ6
	YEC4	Uncharacterized protein EC-RF4								EC-RF4 P03235
US22_2		Protein UL24				UL24 F5H9N4
		75a (Tegument protein/FGARAT) (ORF75 family)
		75b (Tegument protein/FGARAT) (ORF75 family)
		75c (Tegument protein/FGARATc) (ORF75 family)
		Apoptosis regulator BALF1								BALF1 P0CK58
immunoglobulin glycoprotein_RL11		CEACAM1-like protein UL7 (RL11 family)				UL7 Q6SWC3
		Envelope glycoprotein UL130				UL130 F5HCP3
		Envelope glycoprotein UL132				UL132 F5HGU6
immunoglobulin glycoprotein_RL11		Envelope glycoprotein UL4 (RL11 family)				UL4 Q6SWC6
viral G-protein coupled receptor		Envelope glycoprotein US27 (vGPCR family)				US27 F5HDK1
		Envelope protein UL128				UL128 V9LLX6
viral G-protein coupled receptor		Envelope protein US28 (vGPCR family)				US28 F5HF62
DNA binding-like		Epstein-Barr nuclear antigen 1 (EBNA-1) (EBV nuclear antigen 1)								EBNA1 P03211
		Epstein-Barr nuclear antigen 2 (EBNA-2) (EBV nuclear antigen 2)								EBNA2 P12978
		Epstein-Barr nuclear antigen 3 (EBNA-3) (EBV nuclear antigen 3) (Epstein-Barr nuclear antigen 3A) (EBNA-3A) (EBV nuclear antigen 3A)								EBNA3A P12977
		Epstein-Barr nuclear antigen 4 (EBNA-4) (EBV nuclear antigen 4) (Epstein-Barr nuclear antigen 3B) (EBNA-3B) (EBV nuclear antigen 3B)								EBNA3B P03203
		Epstein-Barr nuclear antigen 6 (EBNA-6) (EBV nuclear antigen 6) (Epstein-Barr nuclear antigen 3C) (EBNA-3C) (EBV nuclear antigen 3C)								EBNA3C P03204
		Epstein-Barr nuclear antigen leader protein (EBNA-LP) (EBV nuclear antigen leader protein) (Epstein-Barr nuclear antigen 5) (EBNA-5) (EBV nuclear antigen 5)								EBNALP Q8AZK7
immunoglobulin glycoprotein_RL11		Glycoprotein BILF2								BILF2 P03218
immunoglobulin glycoprotein_RL11		Glycoprotein UL1 (RL11 family)				UL1 Q6SWC8
		Glycoprotein UL22A				UL22A F5HF90
viral G-protein coupled receptor		G-protein coupled receptor homolog UL33 (vGPCR family)				UL33 Q6SW98
immunoglobulin glycoprotein_RL11		Membrane glycoprotein RL11 (RL11 family)				RL11 Q6SWD1
		Membrane glycoprotein UL139				UL139 Q6SW14
immunoglobulin glycoprotein_UL18		Membrane glycoprotein UL142				UL142 F5HHH2
		Membrane glycoprotein UL144 (TNF alpha-like receptor UL144) (UL144 protein)				UL144 F5HAM0
immunoglobulin glycoprotein_UL18		Membrane glycoprotein UL18				UL18 F5HFB4
immunoglobulin glycoprotein_RL11		Membrane glycoprotein UL8 (RL11 family)				UL8 A0A1P7U1I1
immunoglobulin glycoprotein_RL11		Membrane glycoprotein UL9 (RL11 family)				UL9 F5H9T4
		Membrane glycoprotein US10				US10 F5HFJ7
immunoglobulin glycoprotein_US8		Membrane glycoprotein US11				US11 Q6SVZ5
immunoglobulin glycoprotein_US8		Membrane glycoprotein US3				US3 F5HEU0
		Membrane glycoprotein US7				US7 F5HDD3
immunoglobulin glycoprotein_US8		Membrane glycoprotein US8				US8 F5HB52
immunoglobulin glycoprotein_US8		Membrane glycoprotein US9				US9 F5HC33
immunoglobulin glycoprotein_RL11		Membrane protein RL13 (RL11 family)				RL13 Q6SWC9
		Membrane protein UL120				UL120 Q6SW31
		Membrane protein UL121				UL121 F5HD27
immunoglobulin glycoprotein_RL11		Membrane protein UL148				UL148 F5H8Q3
		Membrane protein UL20				UL20 F5H9Z4
US12		Membrane protein US13				US13 F5H9I4
US12		Membrane protein US14				US14 F5HD92
US15 membrane protein		Membrane protein US15				US15 F5HFH0
US12		Membrane protein US20				US20 F5HGH8
		Membrane protein US21				US21 F5HHT6
		Protein BNLF2a								BNLF2a P0C739
		Protein IRL10 (TRL10)				RL10 F5HI32
US22_2		Protein IRS1				IRS1 Q6SW04
		Protein IRS1 (isoform IRS1-263)				IRS1_IRS1-263 Q6SW04
		Protein K12									K12 Q77Q38
		Protein K4.2									K4.2 F5HF36
viral chemokine		Protein K6									K6 F5HET8
		Protein K7									K7 F5HDA4
		Protein K8.1									K8.1 F5HB98
		Protein RL5A (RL11 family)				RL5A F5HF23
		Protein RL8A				RL8A F7V995
		Protein RL9A				RL9A F7V996
immunoglobulin glycoprotein_RL11		Protein UL11 (RL11 family)				UL11 Q6SWB9
DNA binding-like		Protein UL117 (pUL117)				UL117 F5HFA5
DNA binding-like		Protein UL117 (pUL117) (isoform UL117.5)				UL117_UL117.5 F5HFA5
		Protein UL131A				UL131A F5HET4
		Protein UL133				UL133 Q6SW10
		Protein UL135				UL135 F5HAQ7
		Protein UL136				UL136 F5HF35
		Protein UL138				UL138 F5HGQ8
		Protein UL140				UL140 F5HCK7
immunoglobulin glycoprotein_RL11		Protein UL141				UL141 Q6RJQ3
		Protein UL145				UL145 F5HF44
		Protein UL148A				UL148A F5HE74
		Protein UL148B				UL148B F5HAK6
		Protein UL148C				UL148C F5HDE7
		Protein UL148D				UL148D F5HHL7
		Protein UL16				UL16 F5HG68
		Protein UL17				UL17 F5HHT4
US22_1		Protein UL27				UL27 Q6SWA4
US22_4		Protein UL29/28				UL29 Q6SWA3
DUT_1		Protein UL31				UL31 Q6SWA0
		Protein UL40				UL40 Q6SW92
		Protein UL41A				UL41A F5HFG3
		Protein UL42				UL42 F5HHZ3
		Protein UL5 (RL11 family)				UL5 Q6SWC5
viral G-protein coupled receptor		Protein UL78 (vGPCR family)				UL78 F5HET1
DUT_3		Protein UL84				UL84 F5HB40
U68 protein		Protein UL96				UL96 F5H8R6
US1 protein		Protein US1				US1 Q6SW03
US15 membrane protein		Protein US16				US16 Q6SVZ0
US12		Protein US17				US17 F5H9N9
US22_2		Protein US23				US23 F5HAZ3
US22_2		Protein US26				US26 F5H991
US1 protein		Protein US32				US32 F5HD03
		Protein US34				US34 F5HEF3
		Putative viral CXC chemokine 2 (vCXCL2)				UL147 F5HA06
immunoglobulin glycoprotein_RL11		Secreted protein BARF1 (33 kDa early protein) (p33)								BARF1 P03228
US22_2		Tegument protein UL23				UL23 F5HDM3
US22_1		Tegument protein UL26				UL26 F5HGG3
US22_1		Tegument protein UL26 (isoform UL26.21)				UL26_UL26.21 F5HGG3
capsid phosphoprotein		Tegument protein UL35				UL35 F5HE12
		Tegument protein UL35				UL35_UL35A F5HE12
US22_2		Tegument protein UL43				UL43 Q6SW89
US22_2		Tegument protein US22				US22 F5HDC7
US22_2		Tegument protein US24				US24 F5H8S6
		Transcriptional regulator UL34				UL34 F5HC16
US12		Transmembrane protein US18				US18 F5HE69
US12		Transmembrane protein US19				US19 F5HAR3
		Uncharacterized protein BHLF1								BHLF1 P03181
		Uncharacterized protein BLLF2								BLLF2 P03199
		Uncharacterized protein BNLF2b								BNLF2b Q8AZJ3
		Uncharacterized protein HKLF1 (IRL1) (TRL1)				RL1 Q6SWD5
immunoglobulin glycoprotein_RL11		Uncharacterized protein IRL6 (TRL6) (RL11 family)				RL6 Q6SWD3
		Uncharacterized protein LF3								LF3 P0C727
immunoglobulin glycoprotein_RL11		Uncharacterized protein RL12 (RL11 family)				RL12 Q6SWD0
		Uncharacterized protein RPMS1								RPMS1 Q9Q2P0
immunoglobulin glycoprotein_RL11		Uncharacterized protein UL10 (RL11 family)				UL10 Q6SWC0
		Uncharacterized protein UL116				UL116 Q6SW34
		Uncharacterized protein UL124				UL124 F5HHS3
		Uncharacterized protein UL13				UL13 Q6SWB8
immunoglobulin glycoprotein_RL11		Uncharacterized protein UL14				UL14 Q6SWB7
		Uncharacterized protein UL147A				UL147A F5H8R0
		Uncharacterized protein UL150				UL150 Q6SW05
		Uncharacterized protein UL150A				UL150A F7V998
		Uncharacterized protein UL15A				UL15A F5HAE6
		Uncharacterized protein UL19				UL19 F5HI68
		Uncharacterized protein UL2				UL2 Q6SWC7
		Uncharacterized protein UL21A				UL21A F5HH39
		Uncharacterized protein UL30				UL30 F5HGC2
immunoglobulin glycoprotein_RL11		Uncharacterized protein UL6 (RL11 family)				UL6 Q6SWC4
		Uncharacterized protein UL74A				UL74A C1BEG3
US12		Uncharacterized protein US12				US12 F5HE44
		Uncharacterized protein US29				US29 F5HG95
		Uncharacterized protein US30				US30 F5HB41
		Uncharacterized protein US31				US31 F5HAM4
		Uncharacterized protein US33A				US33A F7V999
		Uncharacterized protein US34A				US34A Q6SVX3
immunoglobulin glycoprotein_US8		Unique short US2 glycoprotein (Protein HQLF2) (gpUS2)				US2 F5HE05
		Unique short US6 glycoprotein				US6 Q6SW00
immunoglobulin glycoprotein_RL11		Viral Fc-gamma receptor-like protein UL119 (gp68)				UL119-118 F5HC14
						UL30A U3KRG9
									U47A Q2V073
									U53.5 O92828
									U55A O56289
DUT_3									U55B Q77Y64
										A0A1P7U1U3 A0A1P7U1U3
										BARF0 Q8AZJ4

This is a project in cooperation with the Topf lab at CSSB.

The predictions are visualised using 3Dmol.js:

• Rego, N., & Koes, D. (2015). 3Dmol.js: molecular visualization with WebGL. Bioinformatics.

Predictions were run with LocalColabFold

See also:

• Mirdita, M., Schütze, K., Moriwaki, Y., Heo, L., Ovchinnikov, S., & Steinegger, M. (2022). ColabFold: making protein folding accessible to all. Nature methods.
• The colabs can be found at https://github.com/sokrypton/ColabFold.

As well as Deepmind for Alphafold2:

• Jumper, J. et al (2021). Highly accurate protein structure prediction with AlphaFold. Nature.

Protein homologs were checked with an all-against-all structural comparison performed using DALI:

• Holm, L., Laiho, A., Törönen, P., & Salgado, M. (2023). DALI shines a light on remote homologs: One hundred discoveries. Protein science: a publication of the Protein Society.

Methods:

All proteins were initially predicted using LocalColabfold with 3x recycles. If this model failed the quality scores (see materials and methods for details), then the prediction was rerun with Alphafold2 and LocalColabfold with 20x recycles. The model that passed the quality scores (or the model with the higher pTM if both passed) is shown.

Proteins were also analyzed with DeepTMHMM to identify signal peptides. If a signal peptide was found, the prediction was rerun without the signal peptide. If a transmembrane domain was identified, this domain is specified below the prediction.

Check out the materials and methods if you are interested in the details.

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GNU General Public License v3.0

HerpesFolds Copyright (C) 2024 Timothy K. Soh, Sofia Ognibene, Saskia Sanders, Jens B. Bosse

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