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capsid_protein
Euk-VirApple_rubbery_wood_virus_2
capsid_protein__YP_010087314__Apple_rubbery_wood_virus_2__2164103
Identity
- Accession:
- YP_010087314 ↗
- Protein ID:
- capsid_protein
- Kingdom:
- euk
Quality
73.5
mean pLDDT
Taxonomy
Orthornavirae›
Negarnaviricota›
Bunyaviricetes›
Hareavirales›
Phenuiviridae›
Rubodvirus›
Apple_rubbery_wood_virus_2
TaxID: 2164103
Cluster
View cluster (83 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
high
residues 47-144
Domain cluster:
rep: putative_nucleoprotein__YP_009330282__Hubei_diptera_virus_5__1922886__D214-314
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05733.17 best | Tenui_N | 35.0 | 1.70e-08 | 95.9% | 37.5% |
CATH (11)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1txuA01 | 1.10.246.120 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › | 0.61 | 42.0 | 4.31e-01 | 71.4% | 97.9% |
| 5uagE00 | 3.90.940.10 | Alpha Beta › Alpha-Beta Complex › Eukaryotic RPB6 RNA polymerase subunit › RNA polymerase subunit, RPB6/omega | 0.59 | 31.0 | 3.28e-01 | 89.8% | 53.9% |
| 3rrwB01 | 1.10.520.10 | Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › | 0.58 | 51.0 | 4.22e-01 | 99.0% | 87.9% |
| 2a61B00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.55 | 41.0 | 3.70e-01 | 86.7% | 56.9% |
| 3kjxD01 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.54 | 34.0 | 4.04e-01 | 71.4% | 100.0% |
| 3qxlA00 | 1.10.840.10 | Mainly Alpha › Orthogonal Bundle › Son of Sevenless (SoS) protein; Chain S, domain 2 › Ras guanine-nucleotide exchange factors catalytic domain | 0.53 | 39.0 | 3.01e-01 | 78.6% | 82.4% |
| 2vkhA03 | 1.10.10.1780 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.52 | 35.0 | 3.97e-01 | 92.9% | 98.6% |
| 3w6wB01 | 1.10.1280.10 | Mainly Alpha › Orthogonal Bundle › di-copper center containing domain from catechol oxidase › Di-copper center containing domain from catechol oxidase | 0.52 | 40.0 | 2.76e-01 | 87.8% | 97.1% |
| 3hi0A03 | 1.10.3210.10 | Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 | 0.51 | 42.0 | 3.38e-01 | 90.8% | 61.7% |
| 1hbkA00 | 1.20.80.10 | Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › | 0.51 | 34.0 | 3.52e-01 | 79.6% | 74.2% |
| 1xlyA00 | 1.20.200.20 | Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › She2 domain | 0.51 | 38.0 | 3.02e-01 | 81.6% | 86.6% |
ECOD (8)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3820015 | 3143.1.2.1 ↗ | alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein › Tenui_N | 0.91 | 85.0 | 6.04e-01 | 100.0% | 37.6% |
| 1007268 | 3143.1.2.1 ↗ | alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein › Tenui_N | 0.89 | 74.0 | 5.34e-01 | 100.0% | 34.7% |
| 1030601 | 3143.1.2.1 ↗ | alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein › Tenui_N | 0.85 | 74.0 | 5.30e-01 | 100.0% | 35.5% |
| 4140813 | 593.1.1.1 ↗ | alpha bundles › GroEL equatorial domain-like › GroEL equatorial domain-like › GroEL equatorial domain-like › Cpn60_TCP1 | 0.59 | 44.0 | 3.42e-01 | 79.6% | 88.4% |
| 3413790 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.56 | 34.0 | 3.68e-01 | 76.5% | 72.5% |
| 3616121 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.56 | 35.0 | 3.60e-01 | 76.5% | 66.7% |
| 3232602 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.54 | 34.0 | 3.52e-01 | 77.6% | 67.8% |
| 3647728 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.52 | 35.0 | 3.34e-01 | 80.6% | 59.1% |
D2
high
residues 159-277
Domain cluster:
rep: nucleocapsid_protein__YP_009304992__Wenzhou_Shrimp_Virus_1__1608095__D135-243
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3dcfA02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.56 | 40.0 | 3.82e-01 | 91.6% | 62.7% |
| 2yikA00 | 1.50.10.10 | Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › | 0.54 | 45.0 | 3.04e-01 | 92.4% | 37.1% |
| 2rasA01 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.53 | 45.0 | 3.85e-01 | 96.6% | 57.1% |
| 4cj0A02 | 1.50.10.10 | Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › | 0.51 | 42.0 | 2.93e-01 | 93.3% | 41.9% |
ECOD (5)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3960120 | 192.15.1.222 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › AA_permease_2 | 0.58 | 43.0 | 3.53e-01 | 79.0% | 90.0% |
| 3290100 | 191.1.1.8 ↗ | alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_33 | 0.54 | 39.0 | 3.80e-01 | 92.4% | 68.5% |
| 3988700 | 5082.1.1.1 ↗ | alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux | 0.53 | 46.0 | 4.02e-01 | 100.0% | 73.3% |
| 4938696 | 3883.1.1.1 ↗ | alpha bundles › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-OH_P_transf | 0.53 | 39.0 | 3.81e-01 | 91.6% | 68.9% |
| 3727838 | 5050.1.1.10 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_2 | 0.50 | 36.0 | 2.95e-01 | 74.8% | 75.7% |