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RNA-dependent_RNA_polymerase
Euk-VirOphiostoma_mitovirus_3a
RNA-dependent_RNA_polymerase__NP_660176__Ophiostoma_mitovirus_3a__198597
Identity
- Accession:
- NP_660176 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
70.4
mean pLDDT
Taxonomy
Orthornavirae›
Lenarviricota›
Howeltoviricetes›
Cryppavirales›
Mitoviridae›
Duamitovirus›
Ophiostoma_mitovirus_3a
TaxID: 198597
Cluster
View cluster (5 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 18-136
Domain cluster:
rep: RNA_dependent_RNA_polymerase__YP_005352912__Clitocybe_odora_virus__1162083__D59-187_563-580
CATH (12)
| 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 | 0.70 | 63.0 | 4.80e-01 | 100.0% | 90.6% |
| 3nz4B03 | 1.10.274.20 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 | 0.62 | 47.0 | 4.94e-01 | 97.5% | 90.4% |
| 2qyuA04 | 1.10.4140.10 | Mainly Alpha › Orthogonal Bundle › effector protein (NleL) fold › effector protein (NleL) | 0.61 | 40.0 | 3.36e-01 | 85.7% | 39.9% |
| 2k73A00 | 1.20.1550.10 | Mainly Alpha › Up-down Bundle › Bromodomain-like › DsbB-like | 0.57 | 51.0 | 4.48e-01 | 100.0% | 82.5% |
| 3cvvA02 | 1.25.40.80 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.57 | 35.0 | 3.38e-01 | 82.4% | 54.2% |
| 6cnzF00 | 1.20.59.10 | Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase | 0.57 | 41.0 | 3.72e-01 | 74.8% | 81.6% |
| 1nxuA01 | 1.10.1530.10 | Mainly Alpha › Orthogonal Bundle › Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, four-helix barrel | 0.56 | 35.0 | 4.15e-01 | 98.3% | 94.9% |
| 2zihC00 | 1.10.3630.10 | Mainly Alpha › Orthogonal Bundle › yeast vps74-n-term truncation variant fold › yeast vps74-n-term truncation variant domain like | 0.53 | 45.0 | 3.52e-01 | 95.0% | 92.5% |
| 4fb2A00 | 1.10.630.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 | 0.53 | 42.0 | 2.96e-01 | 84.9% | 72.4% |
| 3vkgA09 | 1.20.920.30 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › | 0.52 | 41.0 | 3.92e-01 | 85.7% | 94.4% |
| 3h4cA01 | 1.10.472.10 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like | 0.51 | 36.0 | 3.95e-01 | 92.4% | 89.6% |
| 1i7dA04 | 1.10.290.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; domain 4 › Topoisomerase I, domain 4 | 0.51 | 43.0 | 4.28e-01 | 94.1% | 99.2% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5004344 | 593.1.1.1 ↗ | alpha bundles › GroEL equatorial domain-like › GroEL equatorial domain-like › GroEL equatorial domain-like › Cpn60_TCP1 | 0.70 | 64.0 | 5.01e-01 | 100.0% | 96.8% |
| 3585345 | 5050.1.1.8 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › FPN1 | 0.56 | 51.0 | 3.92e-01 | 100.0% | 88.9% |
| 3646014 | 604.1.1.61 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF6857 | 0.51 | 37.0 | 2.98e-01 | 74.8% | 65.7% |
D2
medium
residues 137-148_178-299
Domain cluster:
rep: RNA-dependent_RNA_polymerase__YP_009272901__Fusarium_poae_mitovirus_4__1848153__D175-282_343-384
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05919.17 best | Mitovir_RNA_pol | 102.5 | 4.10e-29 | 94.8% | 22.3% |
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5x8tT00 | 3.90.470.10 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › Ribosomal protein L22/L17 | 0.54 | 28.0 | 2.79e-01 | 76.9% | 45.1% |
| 6qdws00 | 3.90.470.10 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › Ribosomal protein L22/L17 | 0.51 | 26.0 | 2.90e-01 | 73.9% | 59.6% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5002351 | 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 | 0.54 | 40.0 | 2.89e-01 | 91.0% | 26.9% |
| 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 | 0.54 | 40.0 | 3.01e-01 | 91.0% | 33.2% |
| 3509327 | 2003.1.2.12 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › DAO | 0.52 | 39.0 | 2.83e-01 | 80.6% | 96.9% |
D3
medium
residues 149-177_300-454
Domain cluster:
rep: RNA-dependent_RNA_polymerase__YP_009508056__Heterobasidion_partitivirus_15__1469908__D97-135_228-464
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05919.17 best | Mitovir_RNA_pol | 262.4 | 1.40e-77 | 91.3% | 30.2% |
D4
medium
residues 455-524
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05919.17 best | Mitovir_RNA_pol | 61.2 | 1.40e-16 | 100.0% | 14.1% |
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4bucA02 | 3.40.1190.10 | Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain | 0.53 | 39.0 | 2.90e-01 | 81.4% | 94.6% |
| 3lk7A02 | 3.40.1190.10 | Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain | 0.52 | 39.0 | 2.84e-01 | 81.4% | 97.6% |
| 3gmiA02 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.52 | 40.0 | 2.90e-01 | 87.1% | 70.3% |
| 4mtlA00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.52 | 42.0 | 3.13e-01 | 95.7% | 97.1% |
| 2gffA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.51 | 35.0 | 3.23e-01 | 72.9% | 85.4% |
| 2xp1A01 | 3.30.505.10 | Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain | 0.50 | 36.0 | 3.32e-01 | 77.1% | 100.0% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4932734 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.62 | 43.0 | 3.59e-01 | 71.4% | 50.4% |
| 3265091 | 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 | 0.58 | 49.0 | 2.93e-01 | 98.6% | 20.0% |
| 3594603 | 3012.1.1.0 ↗ | a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain | 0.54 | 37.0 | 3.35e-01 | 71.4% | 85.0% |
| 3258201 | 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 | 0.54 | 45.0 | 3.22e-01 | 97.1% | 54.0% |
| 3167962 | 4329.1.1.1 ↗ | a+b complex topology › ORC1-binding domain › ORC1-binding domain › ORC1-binding domain › Sir1 | 0.54 | 44.0 | 3.82e-01 | 98.6% | 80.0% |
| 4137680 | 4967.1.1.0 ↗ | alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases | 0.52 | 44.0 | 3.33e-01 | 98.6% | 89.7% |
D5
medium
residues 525-591