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VP1

Euk-Vir

Giant_panda_polyomavirus

VP1__YP_009389282__Giant_panda_polyomavirus__2016463

Identity

Accession:
YP_009389282 ↗
Protein ID:
VP1
Kingdom:
euk

Quality

75.1 mean pLDDT

Taxonomy

Shotokuvirae› Cossaviricota› Papovaviricetes› Sepolyvirales› Polyomaviridae› Deltapolyomavirus› Giant_panda_polyomavirus

TaxID: 2016463

Cluster

View cluster (117 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 49-283_297-308
PDB
Domain cluster: rep: VP1__YP_009325930__Betapolyomavirus_securanorvegicus__1919247__D30-309
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00718.29 best Polyoma_coat 390.9 4.50e-117 100.0% 87.5%
D2 medium residues 20-48_284-296_325-359
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00718.29 best Polyoma_coat 33.5 3.40e-08 35.1% 8.8%
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3q8pB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.60 42.0 3.77e-01 72.7% 98.1%
2e26A03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.57 45.0 3.37e-01 84.4% 89.5%
4b29A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.57 38.0 2.84e-01 70.1% 82.1%
1vw3C01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.56 37.0 3.23e-01 70.1% 71.8%
1fyhB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 44.0 4.05e-01 87.0% 92.2%
5jbdA03 3.20.20.470 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glucansucrase 0.55 42.0 2.72e-01 84.4% 48.6%
2bnmA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 37.0 3.26e-01 70.1% 75.0%
1nkgA03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.54 36.0 2.91e-01 70.1% 92.4%
3loiA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 42.0 3.39e-01 85.7% 67.5%
2vpvA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 36.0 3.46e-01 71.4% 84.0%
3lwcA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 36.0 3.33e-01 71.4% 73.8%
1n26A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 41.0 3.80e-01 90.9% 92.3%
2jqzA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.51 38.0 3.27e-01 81.8% 84.0%
1cauA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 44.0 3.41e-01 98.7% 69.6%
2dliA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 40.0 3.71e-01 85.7% 91.8%
2q7nA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 40.0 3.71e-01 88.3% 89.1%
6l4cA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 44.0 3.38e-01 98.7% 67.9%
2ed8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 40.0 3.85e-01 85.7% 94.2%
5cadA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 44.0 3.29e-01 97.4% 64.8%
2b5iB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 37.0 3.48e-01 77.9% 89.4%
5mj6A03 2.60.40.1910 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 40.0 3.96e-01 85.7% 97.5%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3804238 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.66 45.0 3.66e-01 71.4% 98.6%
3192481 12.6.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › Bac_rhamnosid_C 0.61 43.0 3.87e-01 71.4% 59.2%
5022769 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.59 41.0 3.63e-01 72.7% 86.7%
3624853 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.57 42.0 3.38e-01 79.2% 74.2%
4505512 10.32.1.254 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › FlaA 0.55 39.0 2.89e-01 72.7% 59.6%
3731972 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.55 38.0 3.22e-01 71.4% 83.1%
4619601 10.32.1.48 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › CBM_26 0.53 44.0 3.81e-01 93.5% 76.8%
5029740 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 37.0 3.48e-01 75.3% 90.5%
3259442 11.1.1.29 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TIG 0.51 40.0 3.87e-01 87.0% 95.6%
3549361 11.1.1.794 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › LIFR_D4 0.51 40.0 3.69e-01 88.3% 85.7%
3717146 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.51 40.0 2.52e-01 89.6% 50.2%
3919902 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.51 41.0 2.52e-01 90.9% 16.6%
3683123 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.51 43.0 3.23e-01 96.1% 68.5%