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Coat_protein

Euk-Vir

Shallot_yellow_stripe_virus

Coat_protein__YP_331423__Shallot_yellow_stripe_virus__62059

Identity

Accession:: YP_331423 ↗
Protein ID:: Coat_protein
Kingdom:: euk

Quality

70.6 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Shallot_yellow_stripe_virus

TaxID: 62059

Cluster

View cluster (85 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 78-153

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00767.23 best	Poty_coat	105.9	3.70e-30	100.0%	34.4%

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2oq1A02	1.10.930.10	Mainly Alpha › Orthogonal Bundle › Syk Kinase; Chain A, domain 2 › Syk Kinase; Chain A, domain 2	0.64	35.0	4.28e-01	90.8%	91.1%
4xhpA01	3.30.420.40	Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain	0.59	52.0	4.07e-01	100.0%	87.6%
1qo0D02	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	0.59	36.0	4.23e-01	88.2%	100.0%
6wshA02	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	0.57	35.0	3.92e-01	86.8%	85.5%
1s8nA02	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	0.56	36.0	4.01e-01	88.2%	87.9%
3ousA00	1.10.287.70	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.55	41.0	4.04e-01	100.0%	76.8%
2cs7A00	3.10.50.90	Alpha Beta › Roll › Chitinase A; domain 3 ›	0.54	35.0	3.97e-01	90.8%	92.7%
3d5lA03	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	36.0	4.19e-01	75.0%	100.0%
2vugA04	1.20.58.2250	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.51	32.0	3.07e-01	71.1%	53.3%
2bzyA00	2.30.30.40	Mainly Beta › Roll › SH3 type barrels. › SH3 Domains	0.51	28.0	3.03e-01	77.6%	61.3%
3qthB00	1.20.120.450	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain	0.51	37.0	2.92e-01	77.6%	43.3%

ECOD (29)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4833627	3143.1.1.2 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Poty_coat	0.98	75.0	5.61e-01	78.9%	37.0%
4859055	3143.1.1.2 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Poty_coat	0.95	73.0	6.88e-01	78.9%	69.0%
2123187	3143.1.1.2 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Poty_coat	0.95	90.0	6.47e-01	100.0%	40.9%
3214720	192.2.1.1 ↗	alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2	0.59	36.0	3.36e-01	77.6%	48.4%
3628456	192.2.1.1 ↗	alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2	0.59	35.0	2.97e-01	77.6%	35.9%
4191047	2484.1.1.245 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA, PilM_2, FtsA	0.58	51.0	3.28e-01	100.0%	31.4%
4032204	2484.1.1.178 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA	0.58	51.0	3.28e-01	100.0%	31.4%
1551409	2484.1.1.70 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FtsA	0.58	51.0	3.88e-01	100.0%	64.7%
4435043	2484.1.1.178 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA	0.58	51.0	3.26e-01	100.0%	31.3%
3218658	2484.1.1.2 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin	0.57	49.0	3.45e-01	100.0%	78.9%
4026899	2484.1.1.2 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin	0.57	49.0	3.66e-01	100.0%	90.2%
4304142	2007.1.2.27 ↗	a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_A-cyclase	0.57	46.0	3.29e-01	86.8%	67.3%
4269668	7000.1.1.0 ↗	alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS	0.57	38.0	4.19e-01	93.4%	96.4%
5035483	3755.3.1.0 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin	0.56	41.0	3.19e-01	77.6%	40.0%
5078037	304.139.1.2 ↗	a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs	0.56	45.0	3.13e-01	92.1%	55.8%
3740385	4156.1.1.4 ↗	alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C	0.56	48.0	3.79e-01	100.0%	75.9%
4588825	589.1.1.20 ↗	alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain › TraD_N	0.54	45.0	3.77e-01	90.8%	66.9%
3512585	5010.1.1.5 ↗	extended segments › Bacterial aa3 type cytochrome c oxidase subunit IV › Bacterial aa3 type cytochrome c oxidase subunit IV › Bacterial aa3 type cytochrome c oxidase subunit IV › TraD_N	0.54	45.0	3.90e-01	90.8%	75.7%
4408503	192.2.1.43 ↗	alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › TraD_N	0.54	45.0	3.71e-01	90.8%	64.4%
3942067	4120.1.1.44 ↗	few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP › TraD_N	0.54	44.0	3.92e-01	90.8%	79.1%
3988598	4.16.1.1 ↗	beta barrels › SH3 › PhtA domain-like › PhtA domain-like › Strep_his_triad	0.54	35.0	3.69e-01	93.4%	78.5%
4538202	2004.1.1.17 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Myosin_head	0.53	44.0	2.61e-01	94.7%	49.8%
3506058	192.2.1.0 ↗	alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin	0.53	36.0	3.29e-01	77.6%	53.0%
3424667	375.1.1.227 ↗	few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › XH	0.53	44.0	4.16e-01	94.7%	87.4%
3988577	4.16.1.1 ↗	beta barrels › SH3 › PhtA domain-like › PhtA domain-like › Strep_his_triad	0.53	35.0	3.80e-01	89.5%	88.3%
3833302	101.1.17.6 ↗	alpha arrays › HTH › HTH › FF domain › XH	0.52	44.0	4.16e-01	96.1%	86.3%
3359387	5051.1.1.6 ↗	alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Aa_trans	0.52	44.0	2.79e-01	100.0%	53.8%
3223614	5001.1.1.0 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like	0.52	38.0	2.59e-01	77.6%	74.5%
3993339	188.1.1.1 ↗	alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep	0.51	40.0	2.91e-01	92.1%	64.7%

D2 medium residues 156-216

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00767.23 best	Poty_coat	69.6	4.50e-19	100.0%	25.4%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4833627	3143.1.1.2 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Poty_coat	0.97	92.0	6.48e-01	100.0%	37.7%
2123187	3143.1.1.2 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Poty_coat	0.95	90.0	6.11e-01	100.0%	32.8%
4833628	3143.1.1.2 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Poty_coat	0.86	77.0	5.64e-01	100.0%	39.5%
5050456	5059.1.1.1 ↗	alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA	0.57	48.0	3.14e-01	100.0%	63.0%
4011501	632.2.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains	0.53	38.0	2.92e-01	77.0%	42.1%
3989197	101.1.4.0 ↗	alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like	0.51	41.0	4.14e-01	100.0%	88.3%