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capsid_protein

Euk-Vir

Turtle_grass_virus_X

capsid_protein__YP_009552766__Turtle_grass_virus_X__2292642

Identity

Accession:: YP_009552766 ↗
Protein ID:: capsid_protein
Kingdom:: euk

Quality

77.8 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Tymovirales› Alphaflexiviridae› Potexvirus› Turtle_grass_virus_X

TaxID: 2292642

Cluster

View cluster (87 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 49-114

PDB

Domain cluster: representative

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3fvvA02	1.20.1440.100	Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › SG protein - dephosphorylation function	0.57	42.0	4.04e-01	98.5%	69.3%
6xasW01	3.90.940.10	Alpha Beta › Alpha-Beta Complex › Eukaryotic RPB6 RNA polymerase subunit › RNA polymerase subunit, RPB6/omega	0.56	39.0	4.36e-01	77.3%	100.0%
1qmgA02	1.10.1040.10	Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2	0.55	45.0	3.11e-01	100.0%	75.8%
4h8aB01	1.10.1530.10	Mainly Alpha › Orthogonal Bundle › Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, four-helix barrel	0.55	39.0	4.07e-01	93.9%	85.0%
3vw4A01	1.10.340.50	Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 ›	0.55	38.0	3.51e-01	74.2%	68.5%
5czdB00	1.10.1200.10	Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like	0.54	37.0	3.59e-01	83.3%	62.3%
3uxuA00	1.10.443.10	Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core	0.53	47.0	3.57e-01	100.0%	61.6%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3811150	3525.1.1.1 ↗	alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › BET	0.61	44.0	4.25e-01	98.5%	68.0%
4125952	602.1.1.0 ↗	alpha arrays › L-aspartase middle domain-like › L-aspartase middle domain-like › L-aspartase middle domain-like	0.60	52.0	3.32e-01	100.0%	79.4%
3507297	109.4.1.839 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Maestro_HEAT	0.59	39.0	2.46e-01	75.8%	14.2%
4543015	4953.1.1.4 ↗	beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ASL_C2	0.58	49.0	4.71e-01	100.0%	88.7%
4890941	3187.1.1.20 ↗	alpha bundles › Microtubule-Binding Domain of Flagellar Dynein › Microtubule-Binding Domain of Flagellar Dynein › Microtubule-Binding Domain of Flagellar Dynein › AAA_9	0.57	47.0	4.04e-01	100.0%	93.3%
3890852	7579.1.1.6 ↗	a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1	0.56	37.0	2.36e-01	84.8%	14.2%
5035425	101.1.11.0 ↗	alpha arrays › HTH › HTH › Ribbon-helix-helix	0.55	45.0	3.98e-01	95.5%	81.9%
None	—		0.53	43.0	3.12e-01	95.5%	67.0%
3484342	193.1.1.0 ↗	alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like	0.53	36.0	3.35e-01	100.0%	54.5%
5040523	102.2.1.0 ↗	alpha arrays › HhH/H2TH › H2TH › H2TH	0.50	32.0	3.25e-01	86.4%	64.6%

D2 medium residues 115-201

PDB

Domain cluster: representative

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2jokA01	1.10.4120.10	Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › SopE-like, GEF domain	0.52	45.0	3.68e-01	100.0%	96.0%
1yf2A02	1.10.287.1120	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein	0.52	33.0	3.09e-01	95.4%	51.4%
2xppA00	1.20.930.10	Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70	0.52	39.0	3.39e-01	81.6%	94.9%
7ru9C01	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.51	44.0	3.17e-01	98.9%	53.9%

ECOD (7)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2775588	3143.1.1.1 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Flexi_CP	0.90	85.0	6.29e-01	100.0%	43.7%
1818174	3143.1.1.1 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Flexi_CP	0.88	83.0	6.09e-01	100.0%	71.6%
4975735	187.1.1.1 ↗	alpha arrays › alpha-helical ferredoxin-like › alpha-helical ferredoxin › alpha-helical ferredoxin › Fer4_8	0.55	38.0	3.71e-01	78.2%	66.3%
5004013	601.7.1.69 ↗	alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › AAA_13	0.54	39.0	3.47e-01	98.9%	52.8%
3794211	109.4.1.25 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DIL	0.54	47.0	3.00e-01	98.9%	26.7%
4014936	632.7.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain	0.52	41.0	3.63e-01	82.8%	88.3%
3659982	101.1.10.7 ↗	alpha arrays › HTH › HTH › Cyclin-like › Cyclin_C	0.50	37.0	3.29e-01	80.5%	92.6%