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major_capsid_protein

Euk-Vir

Psittacid_alphaherpesvirus_1

major_capsid_protein__NP_944420__Psittacid_alphaherpesvirus_1__50294

Identity

Accession:: NP_944420 ↗
Protein ID:: major_capsid_protein
Kingdom:: euk

Quality

73.6 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Iltovirus› Psittacid_alphaherpesvirus_1

TaxID: 50294

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 high residues 498-608

PDB

Domain cluster: rep: major_capsid_protein__YP_009046515__Falconid_herpesvirus_1__1510155__D483-586

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	60.6	9.80e-17	100.0%	6.5%

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3934562	7579.1.1.42 ↗	a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Hydrolase_4	0.53	42.0	3.06e-01	86.5%	62.5%

D2 medium residues 43-94_145-204

PDB

D3 medium residues 205-256

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	50.6	1.00e-13	100.0%	3.7%

CATH (13)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4ivfA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.66	48.0	3.63e-01	76.9%	50.9%
4ex8A00	3.40.1790.10	Alpha Beta › 3-Layer(aba) Sandwich › Indigoidine synthase fold › Indigoidine synthase domain	0.65	53.0	3.38e-01	96.2%	81.1%
1w0bA01	1.20.58.420	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP	0.64	51.0	4.29e-01	90.4%	54.3%
1jeiA00	1.10.720.40	Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 ›	0.63	40.0	3.99e-01	75.0%	62.3%
1nt2B02	1.10.287.660	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin	0.61	48.0	4.49e-01	86.5%	82.1%
4gx0A01	1.10.287.70	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.60	46.0	3.76e-01	86.5%	89.3%
3qc1A01	1.25.40.540	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TAP42-like family	0.58	46.0	3.35e-01	88.5%	31.1%
3qkaE02	1.10.287.2460	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.58	40.0	4.21e-01	75.0%	90.7%
3s6jE02	1.10.150.240	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2	0.57	44.0	4.04e-01	84.6%	95.7%
2imhA01	3.60.20.10	Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain	0.56	44.0	2.97e-01	88.5%	90.1%
3behB01	1.20.120.540	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels	0.55	43.0	3.36e-01	86.5%	40.2%
1wgxA00	1.10.10.60	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like	0.54	37.0	3.45e-01	75.0%	53.4%
3keyA01	1.10.10.1080	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Stn1, N-terminal wHTH domain	0.54	36.0	3.19e-01	73.1%	46.0%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3518339	101.1.1.1 ↗	alpha arrays › HTH › HTH › Three-helical HTH › Homeodomain	0.80	63.0	6.67e-01	90.4%	100.0%
None	—		0.73	57.0	4.39e-01	86.5%	39.2%
3782282	2498.1.1.36 ↗	mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › WLM	0.72	55.0	4.07e-01	84.6%	32.1%
3720589	2498.1.1.36 ↗	mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › WLM	0.69	58.0	4.27e-01	94.2%	39.3%
4991205	3646.1.1.0 ↗	alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters	0.65	54.0	3.75e-01	98.1%	95.4%
3313893	604.14.1.4 ↗	alpha bundles › Spectrin repeat-like › PPK N-terminal domain-like › PPK N-terminal domain-like › DUF4110	0.59	46.0	3.74e-01	84.6%	56.2%

D4 medium residues 610-733_910-924_1039-1049

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	140.3	9.00e-41	92.7%	9.4%

CATH (2)

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	0.52	38.0	4.09e-01	75.3%	96.8%
2aniA00	1.10.620.20	Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A	0.51	41.0	3.22e-01	86.7%	80.4%

ECOD (5)

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	0.97	94.0	6.09e-01	100.0%	80.4%
2116543	4066.1.1.1 ↗	a+b complex topology › Major capsid protein VP5 › Major capsid protein VP5 › Major capsid protein VP5 › Herpes_MCP	0.90	86.0	5.79e-01	100.0%	88.8%
3542203	3755.3.1.44 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › JMY	0.51	35.0	3.22e-01	70.0%	91.0%
3605666	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.50	33.0	3.69e-01	86.0%	88.2%
4372538	106.1.1.1 ↗	alpha arrays › Globin-like › Globin-like › Globin-like › Globin	0.50	30.0	3.05e-01	70.0%	58.3%

D5 medium residues 771-800_925-1038

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03122.21 best	Herpes_MCP	82.6	2.30e-23	86.1%	8.8%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3f6gA02	3.30.160.340	Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain ›	0.56	23.0	3.51e-01	89.6%	88.9%

D6 medium residues 1233-1359

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	167.7	4.70e-49	100.0%	9.3%