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outer_capsid_protein_VP5

Euk-Vir

Guangxi_orbivirus

outer_capsid_protein_VP5__YP_009551624__Guangxi_orbivirus__2306813

Identity

Accession:: YP_009551624 ↗
Protein ID:: outer_capsid_protein_VP5
Kingdom:: euk

Quality

66.1 mean pLDDT

Taxonomy

Orthornavirae› Duplornaviricota› Resentoviricetes› Reovirales› Sedoreoviridae› Orbivirus› Guangxi_orbivirus

TaxID: 2306813

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 medium residues 121-182_261-275

PDB

D2 medium residues 294-356

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00901.25 best	Orbi_VP5	43.1	3.10e-11	100.0%	12.4%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4e4yA00	3.40.50.720	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain	0.50	39.0	2.73e-01	90.5%	61.6%

ECOD (7)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5082058	164.1.1.1 ↗	alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2	0.75	47.0	4.40e-01	90.5%	53.3%
4858006	191.1.1.11 ↗	alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_7	0.69	52.0	4.86e-01	81.0%	72.7%
3279199	3721.1.1.1 ↗	alpha bundles › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › VIT1	0.65	37.0	3.57e-01	82.5%	51.4%
3651379	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.64	46.0	3.61e-01	82.5%	35.0%
2796737	3009.1.1.0 ↗	alpha arrays › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like	0.60	42.0	4.22e-01	76.2%	75.8%
4023083	7579.1.1.36 ↗	a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_3	0.57	41.0	2.96e-01	77.8%	27.9%
4012810	5058.1.1.0 ↗	alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region	0.54	38.0	3.57e-01	79.4%	58.8%

D3 medium residues 357-454

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00901.25 best	Orbi_VP5	122.3	3.10e-35	100.0%	19.1%

CATH (19)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2v43A01	2.50.20.10	Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX	0.61	40.0	3.29e-01	84.7%	36.1%
1p32B00	3.10.280.10	Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein	0.59	41.0	3.36e-01	80.6%	40.4%
4l9cA00	3.40.1000.30	Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A ›	0.59	53.0	4.59e-01	100.0%	94.0%
1sqjB02	2.130.10.10	Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase	0.58	42.0	2.69e-01	74.5%	26.7%
2af5A02	3.90.930.1	Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 ›	0.58	37.0	3.34e-01	85.7%	45.7%
5c98B02	2.30.39.10	Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1	0.58	39.0	3.59e-01	70.4%	97.7%
4pj2A00	2.40.128.460	Mainly Beta › Beta Barrel › Lipocalin › Periplasmic lysozyme inhibitor of I-type lysozyme	0.57	44.0	4.15e-01	82.7%	82.6%
2qe8A00	2.120.10.30	Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain	0.56	42.0	2.89e-01	78.6%	32.9%
1iz6A01	2.30.30.30	Mainly Beta › Roll › SH3 type barrels. ›	0.56	35.0	4.04e-01	100.0%	89.9%
7ue1B01	3.30.420.10	Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H	0.55	41.0	3.59e-01	83.7%	53.5%
3nctA00	3.40.50.11880	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Plasmid SOS inhibition protein	0.55	45.0	4.02e-01	87.8%	73.0%
2l3tA02	3.30.505.10	Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain	0.54	43.0	4.29e-01	84.7%	96.0%
1flgA00	2.140.10.10	Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Quinoprotein alcohol dehydrogenase-like superfamily	0.54	39.0	2.48e-01	76.5%	33.8%
2iayA00	3.30.1820.10	Alpha Beta › 2-Layer Sandwich › Lp2179-like fold › Lp2179-like	0.54	38.0	3.67e-01	100.0%	64.0%
1fu1A01	2.170.210.10	Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › DNA double-strand break repair and VJ recombination XRCC4, N-terminal	0.52	40.0	3.78e-01	80.6%	78.0%
3mx7A00	2.40.128.180	Mainly Beta › Beta Barrel › Lipocalin ›	0.52	40.0	4.19e-01	96.9%	88.9%
4q1vA01	2.140.10.30	Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain	0.51	39.0	2.54e-01	81.6%	37.3%
4ikcA00	3.90.190.10	Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily	0.51	44.0	3.29e-01	100.0%	82.8%
3p9vA00	3.30.530.20	Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain	0.50	44.0	3.83e-01	100.0%	71.5%

ECOD (31)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1721532	3733.1.1.1 ↗	a+b complex topology › Orbivirus outer capsid protein VP5 › Orbivirus outer capsid protein VP5 › Orbivirus outer capsid protein VP5 › Orbi_VP5	0.82	77.0	4.69e-01	100.0%	19.0%
3884373	223.2.1.1 ↗	a+b three layers › Profilin-like › profilin-like › profilin-like › Profilin	0.65	46.0	4.07e-01	88.8%	50.7%
4030498	77.1.1.0 ↗	beta meanders › open-sided beta-meander › Outer surface protein › Outer surface protein	0.62	44.0	3.82e-01	85.7%	48.0%
2672137	5.1.3.3 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Neur	0.61	43.0	2.90e-01	73.5%	29.7%
5039064	5.1.4.0 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed	0.59	42.0	2.83e-01	74.5%	21.6%
3261845	5.1.4.0 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed	0.58	46.0	3.12e-01	84.7%	25.5%
3739225	5.1.5.1 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40	0.58	40.0	2.68e-01	70.4%	22.4%
3818615	5.1.3.118 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3	0.57	43.0	2.95e-01	78.6%	29.4%
195810	5.1.3.11 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › MRJP	0.56	42.0	2.89e-01	78.6%	32.9%
3814019	5.1.3.118 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3	0.56	38.0	2.58e-01	70.4%	90.7%
4528719	4.1.1.438 ↗	beta barrels › SH3 › SH3 › SH3 › PF27440	0.56	34.0	3.96e-01	71.4%	90.8%
3927283	4099.1.1.0 ↗	a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like	0.56	49.0	4.29e-01	99.0%	73.3%
3586270	5.1.4.0 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed	0.56	39.0	2.58e-01	74.5%	21.4%
4342741	243.19.1.3 ↗	a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains › XkdV_N	0.55	38.0	4.00e-01	80.6%	81.2%
2549179	243.19.1.0 ↗	a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains	0.55	40.0	4.15e-01	80.6%	81.1%
3734369	4121.1.1.0 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like	0.55	38.0	2.78e-01	73.5%	52.8%
3489068	719.1.1.5 ↗	beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain › PF27933	0.54	43.0	3.80e-01	83.7%	80.7%
3637283	5.1.4.441 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Clathrin-link	0.54	47.0	3.19e-01	96.9%	92.7%
3280045	5.1.4.221 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › SGL	0.54	41.0	2.92e-01	80.6%	40.0%
5014541	5090.1.1.11 ↗	beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains › S_layer_N	0.53	44.0	4.10e-01	98.0%	72.5%
3791102	12.6.1.9 ↗	beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › DUF2152	0.53	40.0	3.80e-01	84.7%	66.7%
4946507	243.3.1.0 ↗	a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin	0.53	36.0	3.98e-01	80.6%	93.3%
3933904	5.1.4.333 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PF31099	0.52	41.0	2.73e-01	86.7%	88.5%
4366777	5.1.5.205 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › PF27482	0.52	37.0	2.54e-01	74.5%	24.7%
3603733	4121.1.1.19 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › PF27230	0.52	44.0	3.22e-01	99.0%	76.2%
5061559	5.1.4.235 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT140_1st	0.52	41.0	2.86e-01	85.7%	88.7%
3279448	9.1.1.17 ↗	beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › MoaF	0.51	42.0	3.79e-01	87.8%	91.7%
3561132	2006.1.1.0 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like	0.51	44.0	2.72e-01	98.0%	29.6%
3743052	5.1.4.78 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › TFIIIC_delta	0.51	36.0	2.34e-01	73.5%	20.4%
5083831	210.1.2.5 ↗	a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › Peptidase_C69	0.50	42.0	2.96e-01	93.9%	61.2%
3661272	5.1.3.118 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3	0.50	38.0	2.68e-01	81.6%	40.3%

D4 medium residues 455-512

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00901.25 best	Orbi_VP5	80.4	1.60e-22	100.0%	11.1%

CATH (10)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3d36B02	1.10.287.130	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain	0.65	35.0	3.47e-01	72.4%	49.2%
3gaeA00	1.25.10.10	Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant	0.60	41.0	2.73e-01	72.4%	17.0%
2om6A02	1.10.150.400	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 ›	0.60	43.0	3.91e-01	77.6%	60.8%
6ewjB01	3.40.640.10	Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain)	0.57	43.0	2.80e-01	81.0%	96.2%
1whuA00	1.10.10.400	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain	0.55	38.0	3.14e-01	70.7%	42.3%
3rc3A01	1.10.1740.140	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A ›	0.55	42.0	3.60e-01	87.9%	64.1%
4bkxA01	4.10.1240.50	Few Secondary Structures › Irregular › Hormone receptor fold ›	0.54	42.0	3.41e-01	84.5%	56.6%
1tjlA00	1.20.120.910	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain	0.53	42.0	3.23e-01	89.7%	87.6%
3dsbA01	3.40.630.30	Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT)	0.53	40.0	3.42e-01	84.5%	83.2%
1y8aA02	1.10.3870.10	Mainly Alpha › Orthogonal Bundle › AF1437-like domain fold › AF1437-like domain superfamily	0.52	41.0	3.34e-01	87.9%	87.1%

ECOD (14)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4973147	103.4.1.30 ↗	alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › PF28863	0.64	50.0	4.23e-01	84.5%	81.1%
3361883	1205.2.1.1 ↗	a+b two layers › C-terminal domain of CdiA toxin › C-terminal domain of P. aeruginosa CdiA › C-terminal domain of P. aeruginosa CdiA › PF31217	0.58	39.0	3.40e-01	70.7%	92.6%
3601178	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.57	41.0	2.90e-01	77.6%	47.7%
3447233	148.1.3.0 ↗	alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain	0.56	40.0	3.47e-01	86.2%	46.0%
3735347	101.1.1.338 ↗	alpha arrays › HTH › HTH › Three-helical HTH › PF28255	0.56	40.0	3.65e-01	79.3%	56.2%
3285405	532.1.1.1 ↗	alpha arrays › Type III secretion system domain-like › Antibiotic binding domain of TipA-like multidrug resistance regulators › Antibiotic binding domain of TipA-like multidrug resistance regulators › TipAS	0.55	42.0	3.36e-01	84.5%	54.2%
3228527	109.4.1.528 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CBF	0.54	37.0	2.27e-01	70.7%	12.9%
4078503	152.1.2.1 ↗	alpha arrays › RPB6/omega subunit-like › RPB6/omega subunit-like › RNA polymerase omega subunit › RNA_pol_Rpb6	0.54	43.0	4.23e-01	91.4%	96.9%
4940527	3050.1.1.7 ↗	alpha bundles › Ribosomal protein L19 (L19e) C-terminal domain › Ribosomal protein L19 (L19e) C-terminal domain › Ribosomal protein L19 (L19e) C-terminal domain › Ribosomal_L19e_C	0.54	37.0	3.31e-01	74.1%	54.4%
3611992	138.1.1.0 ↗	alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain	0.54	42.0	3.19e-01	86.2%	82.9%
3979269	2003.6.1.1 ↗	a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB	0.53	42.0	2.82e-01	93.1%	30.2%
4200953	101.1.8.1 ↗	alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase	0.52	38.0	2.82e-01	77.6%	90.3%
4131981	3050.1.1.7 ↗	alpha bundles › Ribosomal protein L19 (L19e) C-terminal domain › Ribosomal protein L19 (L19e) C-terminal domain › Ribosomal protein L19 (L19e) C-terminal domain › Ribosomal_L19e_C	0.52	36.0	3.29e-01	75.9%	57.6%
3399869	219.1.1.24 ↗	a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Herpes_teg_N	0.51	37.0	2.63e-01	81.0%	71.5%