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VP1

Euk-Vir

Norovirus_GIII

VP1__YP_009237901__Norovirus_GIII__340017

Identity

Accession:
YP_009237901 ↗
Protein ID:
VP1
Kingdom:
euk

Quality

81.2 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Pisoniviricetes› Picornavirales› Caliciviridae› Norovirus› Norovirus_GIII

TaxID: 340017

Cluster

View cluster (17 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 high residues 50-212
PDB
Domain cluster: rep: structural_polyprotein__YP_009333175__Bastrovirus-like_virus_VietNam_Bat_17819_21__1906170__D141-305
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF00915.27 best Calici_coat 193.8 4.40e-57 100.0% 55.1%
PF00073.27 Rhv 37.0 3.70e-09 58.9% 44.4%
D2 medium residues 227-276_394-512
PDB
Domain cluster: rep: VP1__YP_009679035__Norovirus_GII_Hu_JP_2007_GII.P15_GII.15_Sapporo_HK299__1529918__D230-281_420-543
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08435.18 best Calici_coat_C 196.5 6.80e-58 85.2% 53.0%
D3 medium residues 277-393
PDB
Domain cluster: rep: VP1_capsid_protein__YP_009679041__Norovirus_dog_GVI.1_HKU_Ca026F_2007_HKG__673457__D281-384
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08435.18 best Calici_coat_C 57.4 2.30e-15 82.9% 45.2%
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5e6tA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.98 77.0 8.68e-01 80.3% 100.0%
2zl7A02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.90 68.0 7.73e-01 80.3% 100.0%
4rdlA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.89 69.0 7.29e-01 80.3% 100.0%
4rlzA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.86 67.0 6.94e-01 80.3% 100.0%
3lq6A02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.86 67.0 6.79e-01 80.3% 100.0%
3q39B02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.86 66.0 6.88e-01 80.3% 100.0%
1mrzB02 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.67 45.0 4.61e-01 88.9% 71.4%
3op1A02 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.66 48.0 4.95e-01 82.9% 79.3%
2qggA01 2.40.30.60 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › RimM 0.61 45.0 4.93e-01 88.9% 94.6%
3cbnA00 2.60.120.630 Mainly Beta › Sandwich › Jelly Rolls › mth639 domain like 0.61 50.0 4.66e-01 88.0% 97.2%
4il7A00 2.60.120.1300 Mainly Beta › Sandwich › Jelly Rolls › 0.60 36.0 4.05e-01 92.3% 80.0%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.60 39.0 4.61e-01 79.5% 100.0%
4fxtA01 2.60.40.1120 Mainly Beta › Sandwich › Immunoglobulin-like › Carboxypeptidase-like, regulatory domain 0.59 33.0 3.76e-01 77.8% 72.1%
4n0rA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 35.0 4.03e-01 84.6% 85.9%
3tvjB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.55 39.0 4.07e-01 73.5% 82.2%
5fcrC02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 38.0 3.99e-01 72.6% 84.1%
5tr9A01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.54 41.0 4.42e-01 81.2% 100.0%
2ee3A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 36.0 3.70e-01 89.7% 73.1%
5f8zA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.53 38.0 3.90e-01 73.5% 83.0%
1vwxB02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 44.0 3.84e-01 90.6% 82.2%
3r8qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 34.0 3.78e-01 86.3% 84.4%
2xnjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 41.0 4.30e-01 82.9% 99.0%
3cp7A01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.53 37.0 3.86e-01 73.5% 91.0%
4kbxA01 2.40.37.30 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › 0.52 45.0 3.61e-01 94.0% 83.0%
1elvA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 36.0 3.94e-01 72.6% 86.7%
1w99A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 42.0 3.60e-01 88.9% 81.2%
2q9kA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 35.0 3.29e-01 70.9% 61.2%
1a3qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 3.83e-01 81.2% 88.8%
3cf6E02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 33.0 3.32e-01 98.3% 64.7%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2127918 10.2.1.43 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Calici_coat_C 0.94 91.0 6.49e-01 100.0% 41.3%
4856093 10.2.1.43 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Calici_coat_C 0.91 76.0 7.64e-01 87.2% 95.0%
1695947 10.2.1.14 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.89 85.0 6.00e-01 100.0% 42.4%
1696469 10.2.1.43 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Calici_coat_C 0.88 84.0 6.04e-01 100.0% 46.1%
2505857 1.2.1.2 ↗ beta barrels › cradle loop barrel › Capsid protein protrusion (P) domain › Capsid protein protrusion (P) domain › Calici_coat_C 0.87 78.0 7.36e-01 93.2% 86.8%
4881922 1.2.1.2 ↗ beta barrels › cradle loop barrel › Capsid protein protrusion (P) domain › Capsid protein protrusion (P) domain › Calici_coat_C 0.86 82.0 7.74e-01 100.0% 94.9%
2505848 1.2.1.2 ↗ beta barrels › cradle loop barrel › Capsid protein protrusion (P) domain › Capsid protein protrusion (P) domain › Calici_coat_C 0.86 77.0 7.05e-01 94.0% 88.5%
4881921 10.2.1.14 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.86 81.0 5.83e-01 100.0% 44.3%
4872941 10.2.1.43 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Calici_coat_C 0.83 64.0 6.39e-01 79.5% 95.0%
2126884 10.2.1.43 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Calici_coat_C 0.83 79.0 5.58e-01 100.0% 42.8%
2171578 1.2.1.2 ↗ beta barrels › cradle loop barrel › Capsid protein protrusion (P) domain › Capsid protein protrusion (P) domain › Calici_coat_C 0.83 78.0 7.39e-01 100.0% 94.9%
4959951 1.1.14.2 ↗ beta barrels › cradle loop barrel › RIFT-related › PTS system glucitol/sorbitol-specific IIA component-like › DUF371 0.63 48.0 4.57e-01 81.2% 98.6%
5012124 1.1.14.2 ↗ beta barrels › cradle loop barrel › RIFT-related › PTS system glucitol/sorbitol-specific IIA component-like › DUF371 0.63 48.0 4.43e-01 82.1% 90.3%
4927304 1.1.14.2 ↗ beta barrels › cradle loop barrel › RIFT-related › PTS system glucitol/sorbitol-specific IIA component-like › DUF371 0.63 47.0 4.50e-01 79.5% 99.3%
4930890 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 40.0 4.70e-01 76.9% 100.0%
3784576 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 49.0 5.15e-01 83.8% 93.3%
185106 1.1.14.2 ↗ beta barrels › cradle loop barrel › RIFT-related › PTS system glucitol/sorbitol-specific IIA component-like › DUF371 0.61 50.0 4.66e-01 88.0% 97.2%
3842233 1.1.7.69 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › MOV-10_beta-barrel 0.60 44.0 4.89e-01 81.2% 98.9%
4992085 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.59 42.0 4.63e-01 82.1% 95.6%
4620059 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.58 43.0 4.36e-01 77.8% 80.0%
3552831 1.1.7.41 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › UPF1_1B_dom 0.57 43.0 4.53e-01 80.3% 97.1%
4864011 1.1.7.41 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › UPF1_1B_dom 0.56 45.0 4.74e-01 89.7% 96.2%
223801 10.2.1.67 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Spike_JR1 0.55 34.0 3.81e-01 99.1% 82.6%
4958674 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.55 42.0 4.53e-01 85.5% 97.0%
4967825 1.1.14.2 ↗ beta barrels › cradle loop barrel › RIFT-related › PTS system glucitol/sorbitol-specific IIA component-like › DUF371 0.54 40.0 4.12e-01 77.8% 98.2%
3270372 1.1.8.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP-eEF1A_C 0.54 38.0 3.83e-01 71.8% 81.7%
4982344 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 33.0 3.71e-01 77.8% 85.9%
3946710 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.52 43.0 4.27e-01 88.9% 93.3%
3179839 11.1.1.644 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_Pom152 0.51 35.0 3.72e-01 86.3% 81.0%
3556731 11.1.1.92 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › IFNGR1_D2 0.51 40.0 3.72e-01 87.2% 66.9%
3885658 11.1.1.126 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › IL4Ra_N 0.51 34.0 3.68e-01 84.6% 82.1%
5061247 11.1.1.237 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › MG4 0.51 35.0 3.73e-01 87.2% 83.0%
3542410 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 34.0 3.25e-01 86.3% 57.8%