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RNA_dependent_RNA_polymerase
Euk-VirClitocybe_odora_virus
RNA_dependent_RNA_polymerase__YP_005352912__Clitocybe_odora_virus__1162083
Identity
- Accession:
- YP_005352912 ↗
- Protein ID:
- RNA_dependent_RNA_polymerase
- Kingdom:
- euk
Quality
50.1
mean pLDDT
Taxonomy
Orthornavirae›
Lenarviricota›
Howeltoviricetes›
Cryppavirales›
Mitoviridae›
Duamitovirus›
Clitocybe_odora_virus
TaxID: 1162083
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
medium
residues 59-187_563-580
Domain cluster:
representative
CATH (11)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6ks6a01 | 1.10.560.10 | Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain | 0.63 | 49.0 | 4.00e-01 | 83.0% | 92.1% |
| 7p2yd01 | 1.10.520.20 | Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › N-terminal domain of the delta subunit of the F1F0-ATP synthase | 0.57 | 37.0 | 4.38e-01 | 98.0% | 98.0% |
| 6ks6G01 | 1.10.560.10 | Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain | 0.56 | 48.0 | 4.02e-01 | 93.2% | 95.4% |
| 3kttB01 | 1.10.560.10 | Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain | 0.56 | 50.0 | 4.17e-01 | 98.6% | 99.2% |
| 2z15A00 | 3.90.640.90 | Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › Anti-proliferative protein, N-terminal domain | 0.55 | 42.0 | 4.66e-01 | 81.6% | 99.2% |
| 1m4rB00 | 1.20.1250.10 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.55 | 39.0 | 4.01e-01 | 72.8% | 87.2% |
| 2lseA00 | 1.20.120.1360 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.55 | 34.0 | 3.91e-01 | 85.0% | 88.1% |
| 1puoB00 | 1.20.920.50 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › | 0.54 | 41.0 | 4.21e-01 | 78.9% | 100.0% |
| 3auxA00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.53 | 34.0 | 2.55e-01 | 76.2% | 27.3% |
| 2hroA02 | 1.10.274.10 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain | 0.51 | 37.0 | 3.99e-01 | 85.0% | 86.7% |
| 2nq2A00 | 1.10.3470.10 | Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC | 0.51 | 45.0 | 3.60e-01 | 99.3% | 84.7% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3933108 | 110.1.1.0 ↗ | alpha arrays › DEATH domain › DEATH domain › DEATH domain | 0.56 | 29.0 | 3.36e-01 | 76.9% | 66.7% |
| 3936362 | 192.5.1.21 ↗ | alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › TF_AP-2 | 0.54 | 34.0 | 3.64e-01 | 83.7% | 72.3% |
| 4929535 | 604.5.1.2 ↗ | alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU | 0.51 | 42.0 | 3.70e-01 | 87.1% | 96.7% |
| 4025329 | 174.1.1.0 ↗ | few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain | 0.50 | 40.0 | 4.16e-01 | 83.7% | 91.9% |
| 3633559 | 5050.1.1.9 ↗ | 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_1 | 0.50 | 41.0 | 3.53e-01 | 85.7% | 89.8% |
| 3747865 | 5050.1.1.6 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › OATP | 0.50 | 40.0 | 3.19e-01 | 84.4% | 83.8% |
D2
medium
residues 188-234_322-366_403-448
Domain cluster:
representative
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05919.17 best | Mitovir_RNA_pol | 51.8 | 1.00e-13 | 61.6% | 9.0% |
| PF05919.17 | Mitovir_RNA_pol | 28.8 | 9.40e-07 | 34.1% | 8.5% |
CATH (2)
| 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 | 0.73 | 68.0 | 4.50e-01 | 100.0% | 58.8% |
| 2r7rA05 | 1.10.357.80 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › | 0.67 | 61.0 | 5.64e-01 | 100.0% | 96.0% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4434853 | 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 | 0.63 | 47.0 | 3.86e-01 | 76.8% | 63.3% |
| 4012111 | 812.2.1.0 ↗ | a+b duplicates or obligate multimers › MinE-like › Cyanase C-terminal domain › Cyanase C-terminal domain | 0.53 | 22.0 | 2.95e-01 | 91.3% | 74.6% |
| 3332006 | 101.1.2.245 ↗ | alpha arrays › HTH › HTH › winged helix domain › PORR | 0.52 | 29.0 | 3.05e-01 | 94.2% | 58.3% |
| 3804378 | 263.1.1.1 ↗ | a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF | 0.51 | 19.0 | 2.54e-01 | 72.5% | 60.0% |
D3
medium
residues 235-321
D4
medium
residues 367-402_449-542
Domain cluster:
rep: RNA-dependent_RNA_polymerase__YP_009272901__Fusarium_poae_mitovirus_4__1848153__D300-342_409-485
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05919.17 best | Mitovir_RNA_pol | 113.8 | 1.60e-32 | 72.3% | 17.9% |
| PF05919.17 | Mitovir_RNA_pol | 32.7 | 6.20e-08 | 27.7% | 7.6% |
D5
medium
residues 543-562_581-616
D6
medium
residues 842-1009