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VP2

Euk-Vir

Human_bocavirus_2c_PK

VP2__YP_002586776__Human_bocavirus_2c_PK__1511882

Identity

Accession:
YP_002586776 ↗
Protein ID:
VP2
Kingdom:
euk

Quality

74.0 mean pLDDT

Taxonomy

Shotokuvirae› Cossaviricota› Quintoviricetes› Piccovirales› Parvoviridae› Bocaparvovirus› Human_bocavirus_2c_PK

TaxID: 1511882

Cluster

View cluster (92 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 122-159_226-254_456-475
PDB
Domain cluster: representative
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4qc8A00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.95 92.0 5.48e-01 100.0% 71.5%
2g8gA00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.93 88.0 5.24e-01 100.0% 73.3%
1s58A00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.92 87.0 5.18e-01 100.0% 69.4%
1tq5A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.67 45.0 3.97e-01 97.7% 48.8%
1qwrA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.64 38.0 3.79e-01 95.4% 58.4%
5cadA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 43.0 3.24e-01 96.6% 31.6%
5u55A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 43.0 3.81e-01 96.6% 50.8%
3eo6A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 38.0 3.52e-01 94.3% 50.9%
1uijB01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 41.0 3.27e-01 97.7% 37.6%
3winE03 2.60.120.1090 Mainly Beta › Sandwich › Jelly Rolls › 0.60 38.0 3.55e-01 94.3% 50.9%
6b9tF01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 40.0 3.55e-01 95.4% 48.8%
1m0wA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.59 33.0 3.12e-01 88.5% 44.4%
6z9cA01 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.58 38.0 3.33e-01 100.0% 46.7%
4ncdA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 43.0 3.87e-01 94.3% 61.0%
4aw7A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.55 32.0 2.90e-01 95.4% 41.5%
2ws9300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.54 49.0 3.57e-01 100.0% 49.1%
2q30A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 34.0 3.47e-01 96.6% 67.0%
3es4A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 33.0 3.07e-01 95.4% 50.0%
3es1A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 28.0 2.53e-01 95.4% 36.5%
2b39A10 2.60.120.1540 Mainly Beta › Sandwich › Jelly Rolls › 0.50 40.0 3.67e-01 100.0% 64.7%
3ideA02 2.60.120.660 Mainly Beta › Sandwich › Jelly Rolls › icosahedral virus 0.50 45.0 3.80e-01 100.0% 72.0%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3107798 10.2.1.9 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Parvo_coat 0.97 94.0 5.52e-01 100.0% 73.6%
2707659 10.2.1.9 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Parvo_coat 0.96 93.0 5.49e-01 100.0% 69.0%
2990572 10.2.1.9 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Parvo_coat 0.94 90.0 5.31e-01 100.0% 73.6%
2644354 10.2.1.9 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Parvo_coat 0.93 89.0 5.28e-01 100.0% 73.2%
3473996 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.76 71.0 4.83e-01 100.0% 69.3%
3460039 10.12.1.16 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy 0.63 56.0 3.64e-01 97.7% 35.7%
5057573 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 37.0 3.76e-01 100.0% 61.2%
5033161 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.57 52.0 4.51e-01 100.0% 80.0%
3352760 321.1.1.1 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase › Gln-synt_C 0.55 49.0 3.27e-01 100.0% 70.1%
3392961 10.2.1.31 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin 0.54 50.0 4.42e-01 100.0% 71.7%
1569515 11.1.1.248 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › bMG6 0.54 41.0 4.12e-01 94.3% 78.0%
5000329 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 41.0 3.91e-01 100.0% 71.4%
3761249 11.2.1.36 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › MAP10_N 0.52 47.0 4.07e-01 100.0% 97.0%
4957927 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 40.0 3.57e-01 98.9% 57.7%
3519988 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.51 42.0 3.90e-01 100.0% 70.9%
3437315 11.1.1.875 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig-like_IP5PC_F 0.50 45.0 3.85e-01 100.0% 67.1%