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RNA-dependent_RNA_polymerase
Euk-VirErysiphe_necator_mitovirus_3
RNA-dependent_RNA_polymerase__YP_009465717__Erysiphe_necator_mitovirus_3__2052563
Identity
- Accession:
- YP_009465717 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
67.0
mean pLDDT
Taxonomy
Orthornavirae›
Lenarviricota›
Howeltoviricetes›
Cryppavirales›
Mitoviridae›
Mitovirus›
Erysiphe_necator_mitovirus_3
TaxID: 2052563
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 511-584
D2
high
residues 623-679
D3
medium
residues 1-75
Domain cluster:
representative
CATH (23)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 7vwtA01 | 1.10.600.10 | Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase | 0.70 | 61.0 | 3.96e-01 | 100.0% | 22.5% |
| 3qx3A04 | 1.10.268.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 | 0.67 | 60.0 | 5.45e-01 | 100.0% | 95.0% |
| 8gccA03 | 1.10.268.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 | 0.66 | 60.0 | 5.39e-01 | 100.0% | 87.5% |
| 1bgwA03 | 1.10.268.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 | 0.65 | 58.0 | 5.09e-01 | 98.7% | 90.9% |
| 1v9mA03 | 1.20.1690.10 | Mainly Alpha › Up-down Bundle › V-type ATP synthase subunit C fold › V-type ATP synthase subunit C domain | 0.62 | 53.0 | 4.92e-01 | 97.3% | 95.8% |
| 2h7oA01 | 1.20.120.1330 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Rac1-binding domain, N-terminal GTPase binding subdomain | 0.61 | 43.0 | 3.61e-01 | 73.3% | 56.9% |
| 1w07A03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.60 | 45.0 | 3.41e-01 | 100.0% | 35.1% |
| 2kbwA01 | 1.10.437.10 | Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like | 0.59 | 50.0 | 4.06e-01 | 96.0% | 87.6% |
| 3ljbA00 | 1.20.120.1240 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Dynamin, middle domain | 0.59 | 52.0 | 3.71e-01 | 97.3% | 93.2% |
| 7aqbB02 | 1.10.510.10 | Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 | 0.58 | 50.0 | 3.75e-01 | 97.3% | 94.8% |
| 2nx8A00 | 3.40.140.10 | Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 | 0.58 | 42.0 | 3.29e-01 | 77.3% | 89.9% |
| 1dvhA00 | 1.10.760.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain | 0.57 | 34.0 | 3.38e-01 | 98.7% | 55.7% |
| 2wvxA03 | 1.20.1050.60 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › alpha-1,2-mannosidase | 0.56 | 39.0 | 3.64e-01 | 73.3% | 67.4% |
| 1gs0A01 | 1.20.142.10 | Mainly Alpha › Up-down Bundle › Poly(ADP-ribose) Polymerase; domain 1 › Poly(ADP-ribose) polymerase, regulatory domain | 0.55 | 49.0 | 4.13e-01 | 100.0% | 60.5% |
| 4d8mA01 | 1.20.190.10 | Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Pesticidal crystal protein, N-terminal domain | 0.55 | 46.0 | 3.26e-01 | 100.0% | 31.5% |
| 3rrkA02 | 1.20.1460.20 | Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › | 0.54 | 49.0 | 3.83e-01 | 98.7% | 95.5% |
| 2pbeA02 | 1.20.120.330 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 | 0.54 | 45.0 | 3.89e-01 | 96.0% | 87.3% |
| 2ccyA00 | 1.20.120.10 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 | 0.53 | 46.0 | 3.91e-01 | 97.3% | 100.0% |
| 2xmzA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.52 | 41.0 | 2.87e-01 | 88.0% | 63.2% |
| 2kq9A00 | 1.20.120.910 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain | 0.52 | 46.0 | 4.03e-01 | 100.0% | 66.1% |
| 2cqnA00 | 1.10.10.440 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain | 0.52 | 41.0 | 4.08e-01 | 85.3% | 94.8% |
| 4dylA02 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.51 | 40.0 | 3.79e-01 | 100.0% | 69.1% |
| 2fgyA01 | 1.20.120.1310 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Carboxysome Shell Carbonic Anhydrase, N-terminal helical domain | 0.51 | 41.0 | 3.77e-01 | 94.7% | 69.2% |
ECOD (19)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4015729 | 192.7.1.0 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm | 0.68 | 55.0 | 4.58e-01 | 100.0% | 52.0% |
| 5044600 | 601.1.2.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) | 0.67 | 43.0 | 3.68e-01 | 100.0% | 41.7% |
| 3630114 | 4016.1.1.1 ↗ | alpha bundles › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › DNA_topoisoIV | 0.67 | 62.0 | 4.88e-01 | 100.0% | 65.5% |
| 3600354 | 4016.1.1.0 ↗ | alpha bundles › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase | 0.66 | 61.0 | 4.78e-01 | 100.0% | 54.7% |
| 4015726 | 141.1.1.0 ↗ | alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases | 0.62 | 53.0 | 3.39e-01 | 98.7% | 20.3% |
| 3274487 | 605.1.1.155 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Gpi1 | 0.60 | 43.0 | 3.34e-01 | 100.0% | 33.1% |
| 3189775 | 141.1.1.2 ↗ | alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › SQS_PSY | 0.59 | 52.0 | 3.39e-01 | 98.7% | 22.6% |
| 3686738 | 4018.1.1.2 ↗ | a+b two layers › a+b domain in carbohydrate phosphatases › a+b domain in carbohydrate phosphatases › a+b domain in carbohydrate phosphatases › Inositol_P | 0.58 | 52.0 | 3.91e-01 | 100.0% | 91.1% |
| 3789394 | 135.1.1.1 ↗ | alpha arrays › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › G-alpha | 0.57 | 40.0 | 3.35e-01 | 100.0% | 42.6% |
| 4946411 | 633.22.1.1 ↗ | alpha bundles › Bromodomain-like › Vitamin K epoxide reductase (VKOR) › Vitamin K epoxide reductase (VKOR) › VKOR | 0.57 | 47.0 | 3.76e-01 | 100.0% | 46.0% |
| 3253186 | 633.6.1.8 ↗ | alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACOX_C_alpha1 | 0.57 | 44.0 | 3.20e-01 | 100.0% | 30.7% |
| 3716174 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.56 | 50.0 | 4.39e-01 | 100.0% | 67.3% |
| 5007608 | 633.22.1.0 ↗ | alpha bundles › Bromodomain-like › Vitamin K epoxide reductase (VKOR) › Vitamin K epoxide reductase (VKOR) | 0.55 | 43.0 | 3.75e-01 | 97.3% | 53.9% |
| 5056442 | 601.18.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 | 0.55 | 41.0 | 3.56e-01 | 97.3% | 52.2% |
| 3687615 | 109.24.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Helical domain in dedicator of cytokinesis protein 9 › Helical domain in dedicator of cytokinesis protein 9 | 0.53 | 34.0 | 3.19e-01 | 100.0% | 50.5% |
| 3248168 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.53 | 48.0 | 3.96e-01 | 97.3% | 60.0% |
| 3278291 | 150.5.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like | 0.52 | 42.0 | 3.93e-01 | 100.0% | 72.2% |
| 3684774 | 103.4.1.13 ↗ | alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › PF28365 | 0.51 | 39.0 | 3.67e-01 | 80.0% | 97.8% |
| 3347147 | 306.7.1.1 ↗ | a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N | 0.51 | 38.0 | 3.12e-01 | 78.7% | 48.1% |
D4
medium
residues 76-89_118-186_201-242_306-323
Domain cluster:
rep: putative_RNA-dependent_RNA_polymerase__YP_009249807__Rhizoctonia_oryzae-sativae_mitovirus_1__1837089__D175-218_233-338
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05919.17 best | Mitovir_RNA_pol | 67.5 | 1.70e-18 | 80.4% | 22.9% |
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1mukA02 | 3.90.1850.10 | Alpha Beta › Alpha-Beta Complex › RNA-directed RNA polymerase lambda-3 › RNA-directed RNA polymerase lambda-3 | 0.57 | 52.0 | 3.49e-01 | 98.6% | 58.8% |
ECOD (8)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3790375 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.56 | 22.0 | 2.32e-01 | 73.4% | 37.6% |
| 3209439 | 304.48.1.0 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like | 0.54 | 50.0 | 3.78e-01 | 98.6% | 76.2% |
| 3693017 | 304.48.1.0 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like | 0.54 | 50.0 | 3.63e-01 | 99.3% | 79.5% |
| 2850105 | 304.48.1.19 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Bunya_RdRp | 0.53 | 44.0 | 3.59e-01 | 87.4% | 82.2% |
| 3173834 | 304.48.1.1 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 | 0.53 | 45.0 | 3.19e-01 | 90.2% | 49.3% |
| 3589612 | 304.48.1.1 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 | 0.53 | 45.0 | 3.38e-01 | 90.2% | 57.9% |
| 4497954 | 304.48.1.73 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1, RVT_N | 0.53 | 45.0 | 3.44e-01 | 90.2% | 60.6% |
| 2757968 | 304.48.1.12 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Mononeg_RNA_pol | 0.50 | 39.0 | 3.37e-01 | 81.1% | 90.2% |
D5
medium
residues 90-117_243-305_324-411
Domain cluster:
rep: hypothetical_protein_2__YP_009337040__Changjiang_tombus-like_virus_21__1922815__D1-47_99-181
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05919.17 best | Mitovir_RNA_pol | 213.2 | 1.20e-62 | 95.0% | 34.4% |
D6
medium
residues 412-510