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coat_protein
Euk-VirRubus_canadensis_virus_1
coat_protein__YP_006905865__Rubus_canadensis_virus_1__1243178
Identity
- Accession:
- YP_006905865 ↗
- Protein ID:
- coat_protein
- Kingdom:
- euk
Quality
75.7
mean pLDDT
Taxonomy
Orthornavirae›
Kitrinoviricota›
Alsuviricetes›
Tymovirales›
Betaflexiviridae›
Foveavirus›
Rubus_canadensis_virus_1
TaxID: 1243178
Cluster
View cluster (87 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 80-151
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00286.26 best | Flexi_CP | 40.6 | 3.40e-10 | 100.0% | 47.1% |
CATH (15)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6ks6A02 | 3.30.260.10 | Alpha Beta › 2-Layer Sandwich › GROEL; domain 2 › TCP-1-like chaperonin intermediate domain | 0.61 | 52.0 | 4.66e-01 | 100.0% | 97.2% |
| 4jd9G00 | 1.10.238.20 | Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain | 0.60 | 50.0 | 4.21e-01 | 90.3% | 65.0% |
| 1ls1A01 | 1.20.120.140 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain | 0.60 | 45.0 | 4.25e-01 | 81.9% | 74.2% |
| 2g8lB01 | 1.10.8.380 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1 | 0.59 | 42.0 | 4.40e-01 | 76.4% | 89.6% |
| 1tj7A03 | 1.10.40.30 | Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain) | 0.59 | 48.0 | 4.90e-01 | 97.2% | 97.2% |
| 1c3cA03 | 1.10.40.30 | Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain) | 0.56 | 44.0 | 4.28e-01 | 98.6% | 79.0% |
| 2l09A01 | 1.10.8.550 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Proto-chlorophyllide reductase 57 kD subunit B | 0.56 | 39.0 | 4.45e-01 | 76.4% | 100.0% |
| 3w6bB00 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.56 | 47.0 | 3.82e-01 | 100.0% | 96.7% |
| 1g71A02 | 1.10.8.160 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › DNA primase S; domain 2 | 0.55 | 42.0 | 3.82e-01 | 88.9% | 58.3% |
| 3vr4B04 | 1.10.1140.10 | Mainly Alpha › Orthogonal Bundle › Bovine Mitochondrial F1-ATPase, ATP Synthase Beta Chain; Chain D, domain3 › Bovine Mitochondrial F1-atpase; Atp Synthase Beta Chain; Chain D, domain 3 | 0.55 | 37.0 | 2.99e-01 | 70.8% | 68.9% |
| 2kmgA00 | 3.30.70.3580 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Antirestriction protein | 0.54 | 47.0 | 3.79e-01 | 100.0% | 69.0% |
| 3h4cA01 | 1.10.472.10 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like | 0.52 | 40.0 | 3.70e-01 | 86.1% | 86.5% |
| 4okmD00 | 1.10.600.10 | Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase | 0.52 | 42.0 | 2.78e-01 | 90.3% | 43.5% |
| 1kb2B00 | 3.30.50.10 | Alpha Beta › 2-Layer Sandwich › Erythroid Transcription Factor GATA-1; Chain A › Erythroid Transcription Factor GATA-1, subunit A | 0.51 | 40.0 | 3.87e-01 | 87.5% | 81.2% |
| 2pgsA03 | 1.10.3410.10 | Mainly Alpha › Orthogonal Bundle › putative deoxyguanosinetriphosphate triphosphohydrolase fold › putative deoxyguanosinetriphosphate triphosphohydrolase like domain | 0.50 | 42.0 | 3.86e-01 | 95.8% | 92.8% |
ECOD (17)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2775588 | 3143.1.1.1 ↗ | alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Flexi_CP | 0.94 | 90.0 | 6.24e-01 | 100.0% | 36.2% |
| 4258320 | 142.1.1.3 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 | 0.63 | 47.0 | 4.56e-01 | 80.6% | 86.3% |
| 4450518 | 2004.1.1.417 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, AAA_21 | 0.60 | 41.0 | 2.89e-01 | 97.2% | 21.2% |
| 4945955 | 181.1.1.32 ↗ | alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54 | 0.59 | 42.0 | 4.05e-01 | 76.4% | 75.3% |
| 4479434 | 4953.1.1.4 ↗ | beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ASL_C2 | 0.58 | 49.0 | 4.87e-01 | 95.8% | 93.3% |
| 4610458 | 103.1.1.6 ↗ | alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RuvA_C | 0.57 | 38.0 | 4.27e-01 | 75.0% | 100.0% |
| 4992955 | 2006.1.4.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like | 0.57 | 41.0 | 3.34e-01 | 83.3% | 39.3% |
| 5034808 | 4009.1.1.1 ↗ | alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › ARMT1-like_dom | 0.57 | 43.0 | 4.39e-01 | 81.9% | 88.6% |
| 4931700 | 4009.1.1.0 ↗ | alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins | 0.56 | 43.0 | 4.41e-01 | 81.9% | 88.6% |
| 4939372 | 4009.1.1.0 ↗ | alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins | 0.56 | 43.0 | 4.39e-01 | 81.9% | 88.6% |
| 5076000 | 4009.1.1.0 ↗ | alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins | 0.55 | 42.0 | 4.26e-01 | 81.9% | 88.6% |
| 4929293 | 4953.1.1.2 ↗ | beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C | 0.55 | 45.0 | 4.37e-01 | 100.0% | 82.4% |
| 5068636 | 4953.1.1.2 ↗ | beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C | 0.55 | 45.0 | 4.33e-01 | 100.0% | 81.2% |
| 3242935 | 377.1.1.1 ↗ | few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › zf-C4 | 0.55 | 41.0 | 4.02e-01 | 81.9% | 90.0% |
| 4976851 | 4009.1.1.0 ↗ | alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins | 0.55 | 42.0 | 4.31e-01 | 84.7% | 92.9% |
| 4115978 | 103.1.1.6 ↗ | alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RuvA_C | 0.54 | 38.0 | 4.01e-01 | 76.4% | 90.8% |
| 5003875 | 4009.1.1.1 ↗ | alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › ARMT1-like_dom | 0.53 | 42.0 | 4.41e-01 | 87.5% | 100.0% |
D2
medium
residues 152-236
Domain cluster:
rep: capsid_protein__YP_009552766__Turtle_grass_virus_X__2292642__D115-201
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00286.26 best | Flexi_CP | 85.2 | 5.80e-24 | 76.5% | 47.8% |