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RNA-dependent_RNA_polymerase
Euk-VirLake_Sinai_Virus_TO
RNA-dependent_RNA_polymerase__YP_009388502__Lake_Sinai_Virus_TO__1983564
Identity
- Accession:
- YP_009388502 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
73.5
mean pLDDT
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 35-89_108-128_287-315_407-420
D2
medium
residues 141-286_372-406
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3vkgA09 | 1.20.920.30 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › | 0.50 | 31.0 | 3.45e-01 | 90.6% | 75.7% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4589685 | 632.7.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain | 0.64 | 29.0 | 3.92e-01 | 89.0% | 80.0% |
| 3225754 | 632.6.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit | 0.63 | 28.0 | 3.85e-01 | 89.0% | 80.0% |
| 3336494 | 611.7.1.2 ↗ | alpha bundles › N-cbl like › Mixed lineage kinase domain-like (MLKL) N-terminal domain › Mixed lineage kinase domain-like (MLKL) N-terminal domain › MCAfunc | 0.50 | 28.0 | 3.10e-01 | 88.4% | 65.3% |
D3
medium
residues 316-371_421-526
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 |
|---|---|---|---|---|---|
| PF00978.27 best | RdRP_2 | 31.7 | 1.10e-07 | 68.5% | 23.4% |
CATH (25)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6qwtA02 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.79 | 61.0 | 6.55e-01 | 80.2% | 100.0% |
| 4hkqA01 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.73 | 55.0 | 5.82e-01 | 88.3% | 86.8% |
| 1hi8A03 | 3.30.70.1600 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.72 | 62.0 | 6.06e-01 | 90.7% | 98.9% |
| 5xgbA02 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.69 | 49.0 | 4.76e-01 | 72.8% | 79.9% |
| 4zmuA02 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.68 | 48.0 | 4.96e-01 | 72.2% | 89.0% |
| 3tvkA00 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.68 | 48.0 | 4.78e-01 | 72.8% | 81.4% |
| 4urgA00 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.68 | 48.0 | 5.02e-01 | 72.8% | 94.7% |
| 3mtkA00 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.67 | 49.0 | 4.92e-01 | 74.1% | 83.4% |
| 6ttrA01 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.67 | 48.0 | 4.53e-01 | 72.8% | 76.7% |
| 5axmB00 | 3.30.70.3000 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) | 0.62 | 46.0 | 3.98e-01 | 75.3% | 68.2% |
| 3otdA00 | 3.30.70.3000 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) | 0.62 | 45.0 | 3.95e-01 | 75.9% | 66.7% |
| 1r89A03 | 3.30.70.590 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Poly(A) polymerase predicted RNA binding domain | 0.61 | 43.0 | 4.68e-01 | 72.2% | 100.0% |
| 6pwjA01 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.60 | 47.0 | 4.77e-01 | 84.0% | 81.2% |
| 1x9mA03 | 3.30.70.370 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.59 | 43.0 | 4.23e-01 | 75.3% | 94.9% |
| 1azsA00 | 3.30.70.1230 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain | 0.59 | 42.0 | 3.97e-01 | 72.2% | 90.0% |
| 4kgmA00 | 3.30.70.3000 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) | 0.59 | 43.0 | 3.85e-01 | 75.9% | 70.0% |
| 3hvwA00 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.59 | 45.0 | 4.62e-01 | 80.9% | 84.9% |
| 1ybtB00 | 3.30.70.1230 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain | 0.58 | 40.0 | 3.96e-01 | 70.4% | 89.0% |
| 5yjlB01 | 3.30.460.30 | Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Glutamyl-tRNA reductase, N-terminal domain | 0.56 | 40.0 | 4.06e-01 | 72.2% | 99.4% |
| 1yk9A00 | 3.30.70.1230 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain | 0.56 | 39.0 | 3.77e-01 | 71.0% | 91.3% |
| 1gpjA01 | 3.30.460.30 | Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Glutamyl-tRNA reductase, N-terminal domain | 0.55 | 39.0 | 4.06e-01 | 71.6% | 100.0% |
| 4lniA02 | 3.30.590.10 | Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › Glutamine synthetase/guanido kinase, catalytic domain | 0.54 | 39.0 | 3.09e-01 | 74.1% | 73.9% |
| 3qpiA00 | 3.30.70.3420 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.53 | 38.0 | 3.76e-01 | 72.2% | 71.7% |
| 5fxdA03 | 3.40.462.10 | Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain | 0.53 | 39.0 | 3.44e-01 | 75.9% | 90.1% |
| 4npsA02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.52 | 14.0 | 2.50e-01 | 72.8% | 69.0% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5369 | 304.48.1.8 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1 | 0.81 | 59.0 | 4.03e-01 | 74.1% | 43.4% |
| 3068775 | 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 | 0.77 | 63.0 | 5.79e-01 | 85.2% | 89.7% |
| 3931851 | 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 | 0.71 | 60.0 | 5.04e-01 | 88.9% | 59.6% |
| 3973496 | 304.48.1.14 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF | 0.69 | 49.0 | 4.94e-01 | 72.8% | 84.8% |
| 4214422 | 304.48.1.14 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF | 0.68 | 49.0 | 5.11e-01 | 73.5% | 88.0% |
| 4928490 | 304.48.1.22 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GCH_III | 0.67 | 48.0 | 4.14e-01 | 73.5% | 81.6% |
| 4004564 | 304.48.1.14 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF | 0.67 | 48.0 | 4.44e-01 | 73.5% | 65.9% |
| 4890630 | 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 | 0.67 | 62.0 | 5.40e-01 | 100.0% | 89.1% |
| 4007900 | 304.48.1.14 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF | 0.66 | 47.0 | 4.25e-01 | 72.8% | 66.5% |
| 3926438 | 304.48.1.37 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_2 | 0.65 | 57.0 | 4.89e-01 | 93.2% | 74.0% |
| 3281708 | 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 | 0.64 | 46.0 | 4.65e-01 | 72.8% | 88.7% |
| 5056354 | 304.48.1.14 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF | 0.62 | 51.0 | 5.05e-01 | 86.4% | 96.5% |
| 3286133 | 304.48.1.14 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF | 0.62 | 49.0 | 4.99e-01 | 82.7% | 83.7% |
| 3496070 | 304.48.1.4 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Guanylate_cyc | 0.61 | 51.0 | 3.17e-01 | 89.5% | 73.7% |
| 4443361 | 304.55.2.7 ↗ | a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › tRNA_synt_2f | 0.61 | 42.0 | 3.76e-01 | 70.4% | 99.6% |
| None | — | 0.61 | 51.0 | 3.63e-01 | 90.1% | 88.8% | |
| 4992077 | 304.48.1.20 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Thg1 | 0.61 | 44.0 | 4.10e-01 | 74.1% | 72.5% |
| 4273799 | 304.20.1.5 ↗ | a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › tRNA_synt_2f | 0.60 | 42.0 | 3.67e-01 | 70.4% | 99.1% |
| 3412446 | 304.48.1.4 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Guanylate_cyc | 0.60 | 41.0 | 3.55e-01 | 70.4% | 59.2% |
| 4280384 | 304.41.1.1 ↗ | a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N | 0.59 | 43.0 | 4.28e-01 | 73.5% | 100.0% |
| 4929092 | 304.4.1.9 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Chlor_dismutase | 0.57 | 40.0 | 4.49e-01 | 71.6% | 91.9% |
| 4115819 | 304.48.1.48 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF_2 | 0.57 | 45.0 | 4.51e-01 | 84.0% | 87.1% |
| 4062713 | 304.48.1.92 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › PF30234 | 0.57 | 42.0 | 4.76e-01 | 78.4% | 100.0% |
| 1291622 | 304.41.1.1 ↗ | a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N | 0.57 | 40.0 | 4.05e-01 | 71.0% | 100.0% |
| 3286817 | 304.4.1.9 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Chlor_dismutase | 0.57 | 39.0 | 4.39e-01 | 72.8% | 93.3% |
| 3963911 | 101.1.2.55 ↗ | alpha arrays › HTH › HTH › winged helix domain › SMC_ScpB | 0.56 | 21.0 | 2.84e-01 | 73.5% | 62.5% |
| 3936578 | 304.48.1.4 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Guanylate_cyc | 0.55 | 43.0 | 3.76e-01 | 80.9% | 64.3% |
| 2700679 | 304.4.1.9 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Chlor_dismutase | 0.54 | 38.0 | 3.71e-01 | 72.2% | 68.1% |
D4
medium
residues 527-660
Domain cluster:
rep: RNA-dependant_RNA_polymerase__YP_009408181__Lake_Sinai_virus_2__1041831__D505-622