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VP7

Euk-Vir

Lebombo_virus

VP7__YP_009507712__Lebombo_virus__40057

Identity

Accession:: YP_009507712 ↗
Protein ID:: VP7
Kingdom:: euk

Quality

90.2 mean pLDDT

Taxonomy

Orthornavirae› Duplornaviricota› Resentoviricetes› Reovirales› Sedoreoviridae› Orbivirus› Lebombo_virus

TaxID: 40057

Cluster

View cluster (13 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 1-123

PDB

Domain cluster: rep: VP7__YP_009345885__Orbivirus_SX-2017a__1955493__D1-119_304-320

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00897.25 best	Orbi_VP7	196.4	1.00e-57	100.0%	35.1%

D2 medium residues 124-170_240-255

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00897.25 best	Orbi_VP7	29.8	4.50e-07	77.8%	13.4%

CATH (25)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1ahsA00	2.60.120.170	Mainly Beta › Sandwich › Jelly Rolls ›	0.97	84.0	6.40e-01	90.5%	100.0%
1bvp102	2.60.120.170	Mainly Beta › Sandwich › Jelly Rolls ›	0.96	88.0	6.65e-01	96.8%	97.7%
3rnsA01	2.60.120.10	Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls	0.65	51.0	4.29e-01	85.7%	100.0%
3dlbA04	3.30.420.10	Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H	0.62	42.0	3.00e-01	73.0%	25.1%
4mveA00	2.40.128.580	Mainly Beta › Beta Barrel › Lipocalin › GXWXG domain	0.60	41.0	3.15e-01	71.4%	99.3%
3u7vA02	2.60.220.20	Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › putative beta-Galactosidase from caulobacter crescentus	0.59	43.0	3.32e-01	76.2%	57.6%
1avaA02	2.60.40.1180	Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II	0.58	41.0	4.23e-01	73.0%	91.4%
2ozjA00	2.60.120.10	Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls	0.57	45.0	3.81e-01	87.3%	100.0%
1yw6B00	3.40.630.10	Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases	0.57	46.0	3.00e-01	90.5%	28.8%
6t5kC00	3.60.15.10	Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	0.57	41.0	2.76e-01	76.2%	58.9%
6vudA02	3.30.1360.40	Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 ›	0.56	44.0	4.21e-01	85.7%	100.0%
2v8qB00	6.20.250.60	Special › Other non-globular › Double Stranded RNA Binding Domain ›	0.56	39.0	3.78e-01	74.6%	67.1%
3va7A05	3.30.1360.40	Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 ›	0.56	42.0	3.64e-01	81.0%	79.0%
8b0qA01	3.30.420.340	Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › UvrC, RNAse H endonuclease domain	0.55	42.0	3.11e-01	82.5%	76.1%
6ctzA01	3.30.200.20	Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1	0.55	40.0	3.50e-01	76.2%	96.8%
2bcoA01	3.40.630.10	Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases	0.54	45.0	3.00e-01	92.1%	78.4%
2lezA00	3.30.2450.10	Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › Secreted effector protein pipB2	0.53	42.0	3.38e-01	85.7%	78.3%
5cw7B00	3.30.2310.20	Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like	0.53	36.0	3.27e-01	73.0%	57.4%
3nreA00	2.70.98.10	Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 ›	0.52	39.0	2.61e-01	82.5%	92.4%
1nycA00	2.40.310.10	Mainly Beta › Beta Barrel › Staphostatins › beta-Barrel protease inhibitors	0.52	38.0	3.15e-01	77.8%	80.2%
4m1xD00	3.30.1360.240	Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 ›	0.51	38.0	3.71e-01	84.1%	100.0%
2ekjA00	2.60.40.10	Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins	0.51	34.0	3.03e-01	71.4%	69.5%
3zqsA02	3.10.110.20	Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › RWD domain-like	0.51	37.0	3.13e-01	73.0%	48.0%
3uv0B00	2.60.200.20	Mainly Beta › Sandwich › Tumour Suppressor Smad4 ›	0.51	38.0	3.44e-01	88.9%	82.8%
2xetB00	2.60.40.2070	Mainly Beta › Sandwich › Immunoglobulin-like › PapC, C-terminal domain	0.50	35.0	3.27e-01	76.2%	70.5%

ECOD (21)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1262	10.5.1.2 ↗	beta sandwiches › jelly-roll › Viral protein domain › Viral protein domain › Orbi_VP7	0.97	84.0	6.40e-01	90.5%	100.0%
1260	10.5.1.2 ↗	beta sandwiches › jelly-roll › Viral protein domain › Viral protein domain › Orbi_VP7	0.96	90.0	6.74e-01	98.4%	97.8%
3499681	292.2.1.1 ↗	a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box	0.67	41.0	3.57e-01	76.2%	40.9%
3225351	2007.2.3.1 ↗	a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase	0.66	46.0	2.88e-01	73.0%	25.5%
3401697	4357.1.1.4 ↗	beta barrels › WWE domain › WWE domain › WWE domain › WWE_3	0.62	43.0	3.95e-01	74.6%	57.6%
3439646	284.1.3.2 ↗	a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › OSR1_C	0.61	43.0	3.59e-01	73.0%	61.9%
5010657	206.1.1.9 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1	0.59	40.0	2.96e-01	71.4%	84.7%
3722808	192.7.1.40 ↗	alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › APH	0.59	45.0	3.52e-01	84.1%	58.6%
3735395	206.1.1.11 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH	0.58	43.0	2.73e-01	79.4%	61.7%
3483534	5.1.4.0 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed	0.55	42.0	2.65e-01	81.0%	32.4%
3933758	206.1.1.0 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase	0.55	40.0	2.55e-01	76.2%	49.2%
3220069	5.1.4.147 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › RMC1_N	0.55	43.0	2.66e-01	84.1%	39.5%
4670030	206.1.2.1 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › SAICAR synthase › SAICAR_synt	0.55	39.0	2.65e-01	74.6%	77.9%
3173222	4075.1.1.0 ↗	a+b complex topology › RGC domain › RGC domain › RGC domain	0.55	42.0	3.41e-01	81.0%	74.8%
3984011	206.1.1.33 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › OspG_kinase	0.54	39.0	2.82e-01	76.2%	72.0%
3733265	4075.1.1.2 ↗	a+b complex topology › RGC domain › RGC domain › RGC domain › PF29130	0.53	39.0	3.25e-01	76.2%	65.7%
3794160	11.1.1.2 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3	0.52	38.0	3.04e-01	77.8%	74.4%
3617288	5.1.4.254 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_NOL10_N	0.52	38.0	2.41e-01	79.4%	27.1%
4204341	5.1.4.74 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Vps16_N	0.50	43.0	2.68e-01	95.2%	78.6%
1320675	304.157.1.1 ↗	a+b two layers › Alpha-beta plaits › uncharacterized protein 201phi2-1p060 › uncharacterized protein 201phi2-1p060 › DUF6837	0.50	38.0	3.68e-01	85.7%	100.0%
3345935	5.1.2.0 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed	0.50	38.0	3.15e-01	84.1%	70.0%

D3 medium residues 171-239

PDB

Domain cluster: rep: VP7__YP_009507721__Orungo_virus__40058__D173-190_214-252

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00897.25 best	Orbi_VP7	68.6	7.30e-19	100.0%	19.1%

D4 medium residues 256-349

PDB

Domain cluster: rep: VP7__YP_009345885__Orbivirus_SX-2017a__1955493__D255-303_321-349

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00897.25 best	Orbi_VP7	108.5	5.30e-31	100.0%	26.9%

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1bvp103	1.10.170.10	Mainly Alpha › Orthogonal Bundle › Bluetongue Virus 10, subunit 1; domain 3 › Bluetongue Virus 10, subunit 1, domain 3	0.97	94.0	9.31e-01	100.0%	97.9%
1kblA05	1.20.80.30	Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein ›	0.57	40.0	4.12e-01	72.3%	87.6%
1ikpA02	3.90.1350.10	Alpha Beta › Alpha-Beta Complex › Exotoxin A, middle domain › Exotoxin A, middle domain	0.54	43.0	3.68e-01	87.2%	88.6%
1xeqB00	1.10.287.10	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding	0.54	38.0	4.03e-01	79.8%	81.2%
4n4pD00	3.20.20.70	Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I	0.53	39.0	2.81e-01	79.8%	34.7%
3s5nA00	3.20.20.70	Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I	0.52	40.0	2.85e-01	81.9%	34.6%
1b5lA00	1.20.1250.10	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; ›	0.52	37.0	3.17e-01	73.4%	50.0%
3na8A00	3.20.20.70	Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I	0.50	38.0	2.74e-01	81.9%	26.8%

ECOD (2)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3283519	3016.1.1.0 ↗	a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases	0.59	52.0	4.85e-01	100.0%	94.2%
4802917	3339.1.1.1 ↗	alpha bundles › Helical domain in glucansucrase GTF180 › Helical domain in glucansucrase GTF180 › Helical domain in glucansucrase GTF180 › Glyco_hydro_70	0.57	41.0	3.85e-01	75.5%	82.9%