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major_capsid_protein

Euk-Vir

Human_betaherpesvirus_6A

major_capsid_protein__NP_042950__Human_betaherpesvirus_6A__32603

Identity

Accession:: NP_042950 ↗
Protein ID:: major_capsid_protein
Kingdom:: euk

Quality

72.7 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Roseolovirus› Human_betaherpesvirus_6A

TaxID: 32603

Cluster

View cluster (34 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 medium residues 228-319_352-385_1024-1080

PDB

D2 medium residues 567-699_990-1000

PDB

Domain cluster: rep: protein_UL86__YP_004933858__Cynomolgus_macaque_cytomegalovirus_strain_Ottawa__944969__D580-722_767-802

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	152.4	1.90e-44	98.6%	10.0%

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2w3cA01	1.25.10.10	Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant	0.58	42.0	3.47e-01	75.0%	88.7%
2qyuA02	1.25.40.300	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Putative secreted effector protein	0.57	39.0	3.57e-01	70.1%	91.3%
1wtyA00	1.20.120.330	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2	0.54	30.0	3.33e-01	84.7%	67.2%
1st6A01	1.20.120.810	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vinculin, Vh2 four-helix bundle	0.52	30.0	2.49e-01	86.1%	31.4%

ECOD (8)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2116543	4066.1.1.1 ↗	a+b complex topology › Major capsid protein VP5 › Major capsid protein VP5 › Major capsid protein VP5 › Herpes_MCP	0.95	93.0	6.12e-01	100.0%	91.5%
7655	4066.1.1.1 ↗	a+b complex topology › Major capsid protein VP5 › Major capsid protein VP5 › Major capsid protein VP5 › Herpes_MCP	0.90	87.0	5.63e-01	100.0%	82.8%
2738095	4066.1.1.1 ↗	a+b complex topology › Major capsid protein VP5 › Major capsid protein VP5 › Major capsid protein VP5 › Herpes_MCP	0.87	82.0	5.47e-01	100.0%	91.8%
3519038	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.57	40.0	4.03e-01	72.2%	94.5%
3929956	192.7.1.0 ↗	alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm	0.52	27.0	3.22e-01	84.7%	73.3%
3694983	109.4.1.506 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Nop14	0.50	37.0	2.75e-01	77.8%	55.3%
5033525	5058.1.1.0 ↗	alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region	0.50	30.0	3.05e-01	100.0%	57.9%
5054862	3755.3.1.0 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin	0.50	31.0	3.00e-01	92.4%	53.8%

D3 medium residues 700-745_769-795_865-895

PDB

Domain cluster: representative

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4126623	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.51	40.0	2.52e-01	84.6%	60.3%

D4 medium residues 796-864

PDB

Domain cluster: representative

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1bgpA01	1.10.520.10	Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 ›	0.62	53.0	4.12e-01	98.6%	57.1%
6lccA01	1.10.600.10	Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase	0.59	50.0	3.19e-01	97.1%	19.9%
5ywwA01	3.40.50.1010	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease	0.58	38.0	3.25e-01	100.0%	40.9%
7watB02	1.10.600.10	Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase	0.56	49.0	3.16e-01	97.1%	21.1%
3u9jA00	1.20.120.520	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nmb1532 protein domain like	0.56	48.0	3.73e-01	97.1%	68.8%
2plrA00	3.40.50.300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases	0.55	44.0	3.24e-01	91.3%	83.5%
2rn7A01	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.54	39.0	3.98e-01	87.0%	80.3%
2r3bA01	3.40.1190.20	Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase	0.53	42.0	2.94e-01	92.8%	98.9%
1zhcA00	6.10.280.50	Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.53	38.0	3.74e-01	78.3%	100.0%
4n4gA01	1.20.920.10	Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like	0.52	38.0	3.22e-01	98.6%	47.7%
3solA00	1.20.58.1630	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chaperone lipoprotein PulS/OutS	0.50	38.0	3.55e-01	89.9%	62.6%

ECOD (7)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3959427	191.1.1.0 ↗	alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain	0.62	50.0	4.36e-01	95.7%	58.7%
4667660	206.1.1.1 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase	0.57	44.0	2.93e-01	85.5%	36.5%
4547613	2003.6.1.2 ↗	a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › Carb_kinase	0.56	42.0	2.95e-01	87.0%	98.5%
4031986	102.2.1.3 ↗	alpha arrays › HhH/H2TH › H2TH › H2TH › NFACT_N	0.55	38.0	3.84e-01	75.4%	97.1%
3670388	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.53	41.0	3.35e-01	95.7%	43.7%
3267034	101.1.1.0 ↗	alpha arrays › HTH › HTH › Three-helical HTH	0.53	36.0	4.07e-01	78.3%	98.0%
3563980	2484.1.1.104 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_1	0.51	39.0	2.73e-01	88.4%	83.6%

D5 medium residues 896-989

PDB

Domain cluster: rep: major_capsid_protein__YP_073799__Human_betaherpesvirus_7__10372__D903-980

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	97.0	1.00e-27	100.0%	7.2%