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major_capsid_protein

Euk-Vir

Human_alphaherpesvirus_1

major_capsid_protein__YP_009137093__Human_alphaherpesvirus_1__10298

Identity

Accession:: YP_009137093 ↗
Protein ID:: major_capsid_protein
Kingdom:: euk

Quality

72.4 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Simplexvirus› Human_alphaherpesvirus_1

TaxID: 10298

Cluster

View cluster (34 members)

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 216-308_367-400_1052-1120

PDB

Domain cluster: rep: major_capsid_protein__YP_002333524__Equid_alphaherpesvirus_9__55744__D231-307_358-408_1051-1122

Pfam (3)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	84.8	5.00e-24	49.0%	6.9%
PF03122.21	Herpes_MCP	79.8	1.60e-22	35.7%	5.1%
PF03122.21	Herpes_MCP	27.0	1.40e-06	18.4%	2.4%

D2 medium residues 401-434_452-479_1121-1204_1332-1374

PDB

Domain cluster: rep: rh118__YP_068211__Macacine_betaherpesvirus_3__47929__D388-508_990-1015_1074-1164_1294-1343

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	72.4	2.70e-20	47.6%	6.4%
PF03122.21	Herpes_MCP	31.1	7.80e-08	22.8%	3.0%

D3 medium residues 576-618_684-709_999-1051

PDB

Domain cluster: rep: major_capsid_protein__NP_040163__Human_alphaherpesvirus_3__10335__D593-618_727-748_1015-1067

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	50.7	9.60e-14	45.1%	3.8%
PF03122.21	Herpes_MCP	31.0	8.40e-08	36.9%	3.5%

D4 medium residues 619-683

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	82.2	3.00e-23	100.0%	4.5%

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1r5aA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.67	56.0	4.58e-01	100.0%	74.3%
5a4uF02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.65	54.0	4.50e-01	96.9%	62.8%
3mekA04	1.25.40.970	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat ›	0.61	51.0	4.89e-01	100.0%	92.5%
3cwzB01	1.20.58.900	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › RUN domain	0.59	47.0	3.78e-01	93.8%	87.7%
2r5sA02	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.59	48.0	4.45e-01	95.4%	77.3%
1vb3A02	3.40.50.1100	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold ›	0.58	49.0	3.59e-01	100.0%	96.0%
3r6nA02	1.20.58.1060	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.56	43.0	3.37e-01	87.7%	50.3%
2itbB00	1.20.1260.10	Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle	0.55	44.0	3.16e-01	89.2%	73.7%
2y39A00	1.20.120.1490	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.52	41.0	3.55e-01	90.8%	87.3%
5jd5A00	3.40.50.1820	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain	0.51	42.0	2.81e-01	98.5%	44.2%
1cxzB00	1.10.287.160	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat	0.51	36.0	3.39e-01	76.9%	97.7%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5083776	603.1.1.0 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins	0.64	51.0	4.52e-01	87.7%	87.4%
5041259	4995.1.1.1 ↗	alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like › B12-binding_2	0.54	42.0	4.04e-01	90.8%	100.0%
3495293	1203.1.2.0 ↗	alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2	0.53	38.0	3.08e-01	78.5%	79.3%

D5 medium residues 710-822

PDB

Domain cluster: rep: major_capsid_protein__YP_009342387__Spheniscid_alphaherpesvirus_1__2560777__D728-817

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	63.2	1.60e-17	100.0%	8.4%

D6 medium residues 825-961

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	86.6	1.50e-24	100.0%	9.8%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
7655	4066.1.1.1 ↗	a+b complex topology › Major capsid protein VP5 › Major capsid protein VP5 › Major capsid protein VP5 › Herpes_MCP	0.93	88.0	5.63e-01	100.0%	24.7%
4934745	512.1.1.1 ↗	a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st	0.56	30.0	3.55e-01	92.7%	74.7%
4967925	512.1.1.1 ↗	a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st	0.50	29.0	3.36e-01	89.1%	80.0%

D7 medium residues 1205-1300_1312-1331

PDB

Domain cluster: rep: major_capsid_protein__NP_065524__Alcelaphine_gammaherpesvirus_1__35252__D1180-1286_1299-1321

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	131.1	5.30e-38	100.0%	9.5%