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capsid_protein

Euk-Vir

Tuber_aestivum_virus_1

capsid_protein__YP_009507832__Tuber_aestivum_virus_1__927810

Identity

Accession:: YP_009507832 ↗
Protein ID:: capsid_protein
Kingdom:: euk

Quality

59.2 mean pLDDT

Taxonomy

Orthornavirae› Duplornaviricota› Chrymotiviricetes› Ghabrivirales› Orthototiviridae› Totivirus› Tuber_aestivum_virus_1

TaxID: 927810

Cluster

View cluster (13 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 high residues 14-52

PDB

D2 high residues 496-630

PDB

D3 medium residues 115-149_164-285_316-338

PDB

Domain cluster: rep: capsid_protein__YP_007697650__Xanthophyllomyces_dendrorhous_virus_L1A__1167690__D122-309

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF09220.17 best	LA-virus_coat	146.6	1.00e-42	72.8%	29.0%
PF09220.17	LA-virus_coat	32.6	4.00e-08	20.0%	7.8%

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1m1cA00	3.90.1840.10	Alpha Beta › Alpha-Beta Complex › Major capsid protein › Major capsid protein	0.93	90.0	5.84e-01	100.0%	34.4%
3tgxB00	1.20.1250.70	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interleukin-15/Interleukin-21	0.52	34.0	4.02e-01	85.6%	100.0%

ECOD (4)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
7654	4065.1.1.1 ↗	a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › LA-virus_coat	0.93	90.0	5.84e-01	100.0%	34.4%
4821589	4065.1.1.1 ↗	a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › LA-virus_coat	0.77	73.0	5.47e-01	100.0%	52.2%
3735533	4065.1.1.0 ↗	a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related	0.67	59.0	4.43e-01	93.3%	44.3%
3987431	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.52	38.0	2.82e-01	73.9%	83.3%

D4 medium residues 150-163_286-315_339-389

PDB

Domain cluster: representative

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF09220.17 best	LA-virus_coat	36.3	3.00e-09	54.7%	10.3%
PF09220.17	LA-virus_coat	36.2	3.20e-09	37.9%	7.1%

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2gtvX00	1.20.59.10	Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase	0.72	36.0	3.48e-01	76.8%	44.2%
4i0xG00	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.69	33.0	3.90e-01	72.6%	64.7%
4ioeA00	1.10.287.850	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain	0.64	35.0	3.65e-01	75.8%	58.6%
5l09B00	3.30.450.80	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain	0.60	40.0	3.29e-01	81.1%	39.0%
5cbgA00	1.10.287.70	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.59	32.0	3.19e-01	80.0%	50.0%
2vs0A00	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.56	32.0	3.51e-01	75.8%	68.3%
3kbbA02	1.10.150.240	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2	0.55	26.0	2.99e-01	70.5%	60.0%
4opcA00	3.50.50.60	Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain	0.55	37.0	2.43e-01	70.5%	69.2%
2vmaA00	1.20.81.30	Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F	0.54	40.0	3.66e-01	76.8%	93.4%
8alzB08	1.10.3380.10	Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain	0.52	35.0	3.13e-01	80.0%	50.4%
1s35A01	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.51	31.0	3.05e-01	76.8%	55.4%

ECOD (4)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3961347	150.5.1.53 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › PPE	0.68	33.0	3.54e-01	73.7%	52.9%
3962961	150.5.1.53 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › PPE	0.62	33.0	3.59e-01	75.8%	61.3%
3378831	148.1.3.0 ↗	alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain	0.60	33.0	3.20e-01	84.2%	47.3%
4017914	601.55.1.0 ↗	alpha bundles › Four-helical up-and-down bundle › anti-complement domain of BBK32 › anti-complement domain of BBK32	0.52	39.0	3.19e-01	77.9%	92.4%

D5 medium residues 436-485

PDB