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VP1
Euk-VirRat_bufavirus_SY-2015
VP1__YP_009186841__Rat_bufavirus_SY-2015__1763507
Identity
- Accession:
- YP_009186841 ↗
- Protein ID:
- VP1
- Kingdom:
- euk
Quality
57.6
mean pLDDT
Taxonomy
Shotokuvirae›
Cossaviricota›
Quintoviricetes›
Piccovirales›
Parvoviridae›
Protoparvovirus›
Rat_bufavirus_SY-2015
TaxID: 1763507
Cluster
View cluster (20 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
medium
residues 5-95
Domain cluster:
rep: capsid_protein_VP1__YP_009508795__Bat_bocavirus_XM30__2259811__D8-95
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF08398.16 best | Phospholip_A2_4 | 94.5 | 5.40e-27 | 87.9% | 98.8% |
D2
medium
residues 243-306_336-363_376-433_656-684
Domain cluster:
rep: capsid_protein_2__YP_009272916__Mink_bocavirus_1__2259808__D75-100_121-246
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00740.24 best | VP1_2 | 49.6 | 3.30e-13 | 59.8% | 19.4% |
| PF00740.24 | VP1_2 | 78.1 | 8.00e-22 | 37.4% | 12.4% |
CATH (16)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1c8dA00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.88 | 85.0 | 5.78e-01 | 100.0% | 81.9% |
| 2g8gA00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.82 | 79.0 | 5.44e-01 | 100.0% | 83.2% |
| 4qc8A00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.80 | 77.0 | 5.35e-01 | 100.0% | 81.9% |
| 1s58A00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.79 | 75.0 | 5.21e-01 | 100.0% | 79.9% |
| 1opoC01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.54 | 43.0 | 4.46e-01 | 96.6% | 88.5% |
| 4nwvA01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.53 | 42.0 | 4.17e-01 | 96.1% | 79.3% |
| 2ws9201 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 42.0 | 4.13e-01 | 95.5% | 77.9% |
| 1fmd200 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 40.0 | 3.78e-01 | 97.2% | 66.1% |
| 5jtwB02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.52 | 25.0 | 3.11e-01 | 94.4% | 73.6% |
| 2izwC00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 41.0 | 3.96e-01 | 96.1% | 72.1% |
| 1fmd100 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.51 | 35.0 | 3.49e-01 | 95.0% | 64.7% |
| 6sk6A00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.51 | 44.0 | 3.80e-01 | 96.1% | 60.1% |
| 2gh8A01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.51 | 40.0 | 3.84e-01 | 97.2% | 72.8% |
| 1tme200 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.50 | 44.0 | 3.96e-01 | 96.1% | 72.9% |
| 5yl1A01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.50 | 42.0 | 4.24e-01 | 96.1% | 88.4% |
| 5ewnA01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.50 | 43.0 | 4.31e-01 | 96.6% | 88.6% |
ECOD (20)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2142463 | 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 | 0.91 | 88.0 | 5.98e-01 | 100.0% | 80.0% |
| 4884619 | 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 | 0.89 | 86.0 | 5.78e-01 | 100.0% | 80.0% |
| 2990501 | 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 | 0.88 | 70.0 | 5.30e-01 | 81.6% | 78.6% |
| 3108999 | 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 | 0.88 | 67.0 | 5.90e-01 | 78.2% | 69.2% |
| 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 | 0.81 | 77.0 | 5.31e-01 | 100.0% | 83.5% |
| 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 | 0.80 | 77.0 | 5.26e-01 | 100.0% | 83.3% |
| 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 | 0.80 | 77.0 | 5.30e-01 | 100.0% | 79.0% |
| 3063115 | 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 | 0.79 | 58.0 | 5.57e-01 | 74.3% | 72.2% |
| 1195 | 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 | 0.79 | 75.0 | 5.21e-01 | 100.0% | 79.9% |
| 3107916 | 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 | 0.77 | 61.0 | 5.05e-01 | 81.6% | 76.4% |
| 1034414 | 10.2.1.16 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Parvo_NS1 | 0.73 | 69.0 | 5.14e-01 | 100.0% | 79.1% |
| 4880563 | 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 | 0.68 | 61.0 | 5.99e-01 | 100.0% | 88.3% |
| 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) | 0.64 | 59.0 | 5.01e-01 | 97.2% | 87.5% |
| 178766 | 10.2.1.53 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › IHHNV_capsid | 0.63 | 58.0 | 4.82e-01 | 97.2% | 78.9% |
| 3314257 | 10.32.1.193 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › MP | 0.54 | 37.0 | 3.83e-01 | 93.9% | 72.0% |
| 3344591 | 10.2.1.81 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › MP | 0.53 | 37.0 | 3.56e-01 | 94.4% | 62.0% |
| 3408652 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.53 | 26.0 | 2.81e-01 | 93.9% | 51.9% |
| 1264422 | 10.2.1.1 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv | 0.52 | 43.0 | 4.04e-01 | 97.2% | 71.2% |
| 2099173 | 10.2.1.1 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv | 0.50 | 45.0 | 3.93e-01 | 96.6% | 74.3% |
| 4882276 | 10.2.1.1 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv | 0.50 | 44.0 | 4.38e-01 | 95.5% | 89.5% |
D3
medium
residues 307-335_603-655
Domain cluster:
rep: VP1_VP2__YP_009553052__Rousettus_leschenaultii_bocaparvovirus_1__2053082__D261-317_596-621
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00740.24 best | VP1_2 | 40.0 | 2.70e-10 | 64.6% | 9.3% |
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1c8dA00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.83 | 78.0 | 4.62e-01 | 100.0% | 64.1% |
| 3htxA01 | 3.30.160.20 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › | 0.57 | 33.0 | 3.42e-01 | 91.5% | 60.5% |