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VP2
Euk-VirSolenopsis_invicta_densovirus
VP2__YP_008766863__Solenopsis_invicta_densovirus__1414671
Identity
- Accession:
- YP_008766863 ↗
- Protein ID:
- VP2
- Kingdom:
- euk
Quality
55.6
mean pLDDT
Taxonomy
Shotokuvirae›
Cossaviricota›
Quintoviricetes›
Piccovirales›
Parvoviridae›
Scindoambidensovirus›
Solenopsis_invicta_densovirus
TaxID: 1414671
Cluster
Singleton — not in a non-trivial cluster
3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 179-259_272-396_480-526
Domain cluster:
rep: viral_polypeptide_VP4__NP_046818__Diatraea_saccharalis_densovirus__72003__D35-143_249-273_312-405
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02336.22 best | Denso_VP4 | 91.4 | 1.10e-25 | 61.7% | 61.7% |
CATH (28)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1pm4A00 | 2.60.120.510 | Mainly Beta › Sandwich › Jelly Rolls › Mitogen Ypm | 0.69 | 30.0 | 4.38e-01 | 94.9% | 88.0% |
| 1c8dA00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.67 | 63.0 | 4.84e-01 | 100.0% | 88.1% |
| 2g8gA00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.67 | 64.0 | 4.90e-01 | 100.0% | 87.2% |
| 4qc8A00 | 2.170.30.10 | Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 | 0.67 | 63.0 | 4.95e-01 | 100.0% | 86.9% |
| 5ewnA01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.64 | 44.0 | 5.16e-01 | 98.8% | 96.7% |
| 3jb8A00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.62 | 43.0 | 4.95e-01 | 99.6% | 95.1% |
| 1a6cA02 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.62 | 38.0 | 4.68e-01 | 98.0% | 93.9% |
| 5j09A00 | 2.60.120.950 | Mainly Beta › Sandwich › Jelly Rolls › Circovirus capsid protein | 0.62 | 42.0 | 4.96e-01 | 99.6% | 100.0% |
| 2ws9300 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.61 | 43.0 | 4.54e-01 | 99.2% | 78.8% |
| 4rs5A00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.60 | 43.0 | 4.56e-01 | 99.2% | 81.4% |
| 3wnoA03 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.60 | 24.0 | 3.26e-01 | 98.4% | 68.5% |
| 1tme200 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.59 | 48.0 | 4.80e-01 | 100.0% | 82.4% |
| 4zelB01 | 2.60.120.310 | Mainly Beta › Sandwich › Jelly Rolls › Copper type II, ascorbate-dependent monooxygenase, N-terminal domain | 0.59 | 34.0 | 4.34e-01 | 94.9% | 97.2% |
| 1fyhB02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.58 | 23.0 | 3.46e-01 | 97.2% | 84.5% |
| 2wq4A01 | 2.60.120.760 | Mainly Beta › Sandwich › Jelly Rolls › | 0.57 | 31.0 | 4.11e-01 | 97.2% | 99.2% |
| 6eiwA01 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.57 | 42.0 | 4.80e-01 | 98.8% | 100.0% |
| 4qpiB00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.57 | 43.0 | 4.62e-01 | 100.0% | 90.3% |
| 3a21A03 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.57 | 25.0 | 3.61e-01 | 96.8% | 94.1% |
| 2ws9100 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.56 | 42.0 | 4.30e-01 | 99.6% | 78.0% |
| 1yq5A00 | 2.60.120.670 | Mainly Beta › Sandwich › Jelly Rolls › Minor capsid protein. | 0.56 | 32.0 | 4.17e-01 | 98.4% | 98.6% |
| 2okmA00 | 2.60.40.740 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.54 | 29.0 | 3.72e-01 | 95.3% | 87.7% |
| 7vt9A02 | 2.60.40.1180 | Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II | 0.54 | 16.0 | 2.72e-01 | 96.0% | 75.3% |
| 3rwnB00 | 2.60.120.1120 | Mainly Beta › Sandwich › Jelly Rolls › Sf6-type phage tail needle knob | 0.54 | 32.0 | 4.02e-01 | 98.4% | 96.1% |
| 1b35A00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.53 | 47.0 | 4.73e-01 | 100.0% | 91.5% |
| 3v10A02 | 2.60.40.740 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.53 | 28.0 | 3.58e-01 | 96.8% | 85.6% |
| 5k0uB00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 41.0 | 4.28e-01 | 100.0% | 88.1% |
| 4zchA01 | 2.60.120.40 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 28.0 | 3.78e-01 | 97.2% | 100.0% |
| 2c9aA01 | 2.60.120.200 | Mainly Beta › Sandwich › Jelly Rolls › | 0.50 | 32.0 | 3.88e-01 | 97.6% | 96.9% |
ECOD (39)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3106452 | 10.2.1.28 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Denso_VP4 | 0.91 | 88.0 | 7.24e-01 | 100.0% | 86.2% |
| 1197 | 10.2.1.28 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Denso_VP4 | 0.90 | 87.0 | 7.16e-01 | 100.0% | 86.3% |
| 1112407 | 10.2.1.28 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Denso_VP4 | 0.87 | 84.0 | 7.16e-01 | 100.0% | 86.8% |
| 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 | 0.76 | 73.0 | 6.06e-01 | 100.0% | 82.0% |
| 3910447 | 10.32.1.4 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L | 0.68 | 30.0 | 4.04e-01 | 95.7% | 76.9% |
| 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 | 0.68 | 64.0 | 4.92e-01 | 100.0% | 87.8% |
| 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 | 0.68 | 64.0 | 4.86e-01 | 100.0% | 86.9% |
| 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 | 0.67 | 64.0 | 4.89e-01 | 100.0% | 87.4% |
| 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 | 0.67 | 64.0 | 4.94e-01 | 100.0% | 84.0% |
| 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 | 0.67 | 64.0 | 4.88e-01 | 100.0% | 87.5% |
| 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 | 0.67 | 63.0 | 4.88e-01 | 100.0% | 88.0% |
| 5067639 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.65 | 29.0 | 4.07e-01 | 96.8% | 84.0% |
| 3849772 | 10.4.1.1 ↗ | beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB | 0.63 | 29.0 | 4.12e-01 | 97.2% | 90.0% |
| 4177785 | 10.1.1.10 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › MAM | 0.62 | 29.0 | 4.21e-01 | 94.1% | 98.2% |
| 3231820 | 5001.1.1.52 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › SID-1_RNA_chan | 0.61 | 33.0 | 4.29e-01 | 96.4% | 92.1% |
| 3563711 | 10.32.1.4 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L | 0.61 | 27.0 | 3.18e-01 | 98.0% | 55.7% |
| 2710690 | 10.2.1.29 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Circo_capsid | 0.61 | 44.0 | 4.89e-01 | 100.0% | 92.0% |
| 3390429 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.61 | 34.0 | 4.36e-01 | 96.4% | 93.1% |
| 4106399 | 10.12.1.107 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › PF27522 | 0.61 | 36.0 | 4.59e-01 | 93.7% | 100.0% |
| 4015998 | 10.12.1.107 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › PF27522 | 0.61 | 36.0 | 4.02e-01 | 97.2% | 72.4% |
| 5045890 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.61 | 34.0 | 4.39e-01 | 97.2% | 93.8% |
| 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) | 0.61 | 58.0 | 5.58e-01 | 100.0% | 92.5% |
| 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 | 0.60 | 57.0 | 5.39e-01 | 100.0% | 84.3% |
| 5039565 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.59 | 32.0 | 4.32e-01 | 98.4% | 100.0% |
| 3691986 | 10.32.1.246 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PalB_C | 0.59 | 34.0 | 4.23e-01 | 97.2% | 90.3% |
| 3221888 | 10.32.1.218 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › DUF7154 | 0.57 | 28.0 | 3.88e-01 | 98.4% | 93.5% |
| 140694 | 10.2.1.69 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv_5 | 0.56 | 42.0 | 4.29e-01 | 99.6% | 78.0% |
| 3396567 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.56 | 28.0 | 3.82e-01 | 96.4% | 92.3% |
| 4887934 | 10.3.1.8 ↗ | beta sandwiches › jelly-roll › TNF-like › TNF-like › Bc2l-C_N | 0.55 | 30.0 | 4.01e-01 | 97.2% | 98.5% |
| 3404051 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.55 | 34.0 | 4.20e-01 | 98.8% | 99.4% |
| 1866052 | 10.2.1.44 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › CRPV_capsid | 0.54 | 40.0 | 4.41e-01 | 100.0% | 92.8% |
| 2579092 | 10.2.1.44 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › CRPV_capsid | 0.53 | 43.0 | 4.30e-01 | 99.2% | 80.1% |
| 4968615 | 11.1.5.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f | 0.52 | 29.0 | 3.87e-01 | 97.2% | 100.0% |
| 3498711 | 10.32.1.6 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › P_proprotein | 0.52 | 35.0 | 4.11e-01 | 100.0% | 95.0% |
| 3199216 | 10.32.1.203 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin | 0.51 | 33.0 | 4.00e-01 | 96.0% | 100.0% |
| 4965230 | 212.1.1.12 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › UPF0029 | 0.51 | 22.0 | 2.89e-01 | 100.0% | 69.6% |
| 3533957 | 10.1.1.10 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › MAM | 0.51 | 30.0 | 3.85e-01 | 97.2% | 100.0% |
| 3183973 | 10.1.1.26 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Glyco_hydro_32C | 0.51 | 30.0 | 3.77e-01 | 98.4% | 94.8% |
| 4997182 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.50 | 31.0 | 3.73e-01 | 100.0% | 92.1% |