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major_capsid_protein

Euk-Vir

Human_alphaherpesvirus_3

major_capsid_protein__NP_040163__Human_alphaherpesvirus_3__10335

Identity

Accession:: NP_040163 ↗
Protein ID:: major_capsid_protein
Kingdom:: euk

Quality

71.7 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Varicellovirus› Human_alphaherpesvirus_3

TaxID: 10335

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 35-113_129-202

PDB

D2 medium residues 243-319_377-438_1107-1139

PDB

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

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	74.6	5.90e-21	45.9%	5.6%
PF03122.21	Herpes_MCP	68.3	4.60e-19	38.4%	4.5%

D3 medium residues 593-618_727-748_1015-1067

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	46.0	2.50e-12	59.4%	4.0%

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3827654	185.1.1.1 ↗	alpha superhelices › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin-like › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin/Protein HNS-dependent expression A HdeA › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin › Tryp_alpha_amyl	0.51	39.0	3.61e-01	81.2%	81.5%

D4 medium residues 619-726

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	147.6	5.50e-43	100.0%	7.9%

CATH (14)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2or0B01	1.10.540.10	Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain	0.66	49.0	4.72e-01	77.8%	89.5%
4bvxA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.66	45.0	4.62e-01	70.4%	100.0%
5a4uF02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.65	49.0	4.75e-01	79.6%	100.0%
2qyuA02	1.25.40.300	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Putative secreted effector protein	0.61	48.0	3.99e-01	84.3%	90.3%
4hojA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.61	45.0	4.61e-01	76.9%	94.2%
2j0wA02	1.20.120.1320	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartokinase, catalytic domain	0.61	30.0	3.26e-01	100.0%	54.8%
5fzsA00	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.59	41.0	4.18e-01	71.3%	72.9%
4y6cA00	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.57	44.0	3.60e-01	83.3%	74.5%
4me9B00	1.10.357.10	Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2	0.57	45.0	3.74e-01	84.3%	72.6%
1n2aA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.57	41.0	4.21e-01	76.9%	93.4%
1b8dA00	1.10.490.20	Mainly Alpha › Orthogonal Bundle › Globin-like › Phycocyanins	0.54	38.0	3.31e-01	72.2%	62.8%
6ncrB01	3.40.50.620	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs	0.53	44.0	3.52e-01	92.6%	94.4%
1yz6A02	1.10.150.190	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Translation initiation factor 2; subunit 1; domain 2	0.51	31.0	3.36e-01	86.1%	72.4%
8e7cA02	1.10.1840.10	Mainly Alpha › Orthogonal Bundle › main proteinase (3clpro) structure, domain 3 › main proteinase (3clpro) structure, domain 3	0.50	28.0	2.89e-01	77.8%	56.1%

ECOD (16)

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	1.00	97.0	5.84e-01	100.0%	19.7%
2116543	4066.1.1.1 ↗	a+b complex topology › Major capsid protein VP5 › Major capsid protein VP5 › Major capsid protein VP5 › Herpes_MCP	0.91	87.0	5.45e-01	100.0%	23.1%
2738095	4066.1.1.1 ↗	a+b complex topology › Major capsid protein VP5 › Major capsid protein VP5 › Major capsid protein VP5 › Herpes_MCP	0.85	78.0	4.95e-01	100.0%	21.6%
4640172	109.4.1.1311 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT, HEAT_EZ	0.63	49.0	3.65e-01	83.3%	73.0%
3416804	109.4.1.1140 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_PEP5_VPS11	0.63	46.0	3.47e-01	76.9%	33.2%
3250474	109.1.1.7 ↗	alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_3	0.61	48.0	4.09e-01	87.0%	94.1%
3937305	109.4.1.953 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_MROH2B_1st	0.60	45.0	3.08e-01	81.5%	53.8%
3592091	603.2.1.27 ↗	alpha bundles › STAT-like › STAT › STAT › PF26179	0.60	42.0	3.71e-01	73.1%	85.6%
3584622	4106.1.1.1 ↗	few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC	0.57	39.0	3.08e-01	100.0%	34.5%
3467201	109.4.1.1258 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2	0.57	44.0	3.34e-01	83.3%	53.5%
3223055	206.1.1.0 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase	0.56	48.0	2.90e-01	100.0%	77.3%
3614324	109.1.1.52 ↗	alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › PF26179	0.55	42.0	3.78e-01	84.3%	96.2%
4574523	1197.1.1.1 ↗	alpha bundles › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › G3P_acyltransf	0.54	41.0	3.53e-01	82.4%	100.0%
2698234	192.24.1.1 ↗	alpha bundles › Long alpha-hairpin › RPC62 helical hairpin domain › RPC62 helical hairpin domain › RPC3_helical	0.51	37.0	3.73e-01	100.0%	75.0%
5029119	601.7.1.0 ↗	alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain	0.51	36.0	3.54e-01	75.0%	92.5%
5063535	5058.1.1.16 ↗	alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1	0.50	28.0	3.15e-01	87.0%	71.2%

D5 medium residues 848-919

PDB

Domain cluster: rep: major_capsid_protein__YP_002333524__Equid_alphaherpesvirus_9__55744__D829-899

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	31.4	6.50e-08	100.0%	5.0%

D6 medium residues 959-1014

PDB

Domain cluster: rep: major_capsid_protein__NP_066849__Gallid_alphaherpesvirus_3__35250__D968-1019

D7 medium residues 1140-1180_1197-1207

PDB

Domain cluster: representative

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4gb5A00	3.10.450.50	Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, ›	0.56	40.0	2.96e-01	78.8%	86.5%

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4531694	3498.1.1.2 ↗	alpha arrays › RNA polymerase sigma factor rpoD N-terminal domain › RNA polymerase sigma factor rpoD N-terminal domain › RNA polymerase sigma factor rpoD N-terminal domain › Sigma70_r1_1	0.54	37.0	3.51e-01	73.1%	64.6%

D8 medium residues 1208-1350

PDB