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RNA-dependent_RNA_polymerase
Euk-VirWenzhou_narna-like_virus_3
RNA-dependent_RNA_polymerase__YP_009336520__Wenzhou_narna-like_virus_3__1923578
Identity
- Accession:
- YP_009336520 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
72.2
mean pLDDT
Cluster
View cluster (39 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 54-172
Domain cluster:
rep: RNA-dependent_RNA_polymerase__YP_009337264__Wenling_narna-like_virus_1__1923501__D1-107
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2ib0A01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.53 | 38.0 | 3.73e-01 | 97.5% | 66.7% |
| 3tc1B00 | 1.10.600.10 | Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase | 0.51 | 42.0 | 3.23e-01 | 92.4% | 63.3% |
| 3tp3A02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.50 | 34.0 | 3.22e-01 | 86.6% | 55.4% |
ECOD (5)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3231223 | 5054.1.1.0 ↗ | alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels | 0.67 | 36.0 | 3.12e-01 | 100.0% | 35.0% |
| 4130315 | 3896.1.1.3 ↗ | alpha duplicates or obligate multimers › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase › CobS | 0.61 | 54.0 | 4.33e-01 | 99.2% | 84.2% |
| 4625131 | 3896.1.1.3 ↗ | alpha duplicates or obligate multimers › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase › CobS | 0.59 | 51.0 | 4.19e-01 | 100.0% | 76.7% |
| 4941415 | 1076.1.1.0 ↗ | alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related | 0.56 | 38.0 | 3.53e-01 | 87.4% | 54.0% |
| 3780572 | 5073.1.1.0 ↗ | alpha bundles › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain M | 0.54 | 45.0 | 3.13e-01 | 92.4% | 62.7% |
D2
medium
residues 247-340
Domain cluster:
representative
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 7l9pK01 | 3.30.900.10 | Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain | 0.61 | 37.0 | 3.47e-01 | 71.3% | 47.9% |
| 7w3rB01 | 3.90.70.10 | Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases | 0.53 | 44.0 | 3.12e-01 | 93.6% | 90.3% |
| 6qpqB00 | 1.10.10.580 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Structural maintenance of chromosome 1. Chain E | 0.50 | 31.0 | 3.36e-01 | 89.4% | 72.8% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5026539 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.62 | 35.0 | 3.57e-01 | 90.4% | 55.6% |
| 5044372 | 1036.1.1.1 ↗ | a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 | 0.52 | 37.0 | 3.56e-01 | 75.5% | 66.4% |
| 4585964 | 167.1.1.1 ↗ | alpha arrays › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal_S7 | 0.51 | 39.0 | 3.14e-01 | 81.9% | 65.8% |
| 3174361 | 101.1.2.312 ↗ | alpha arrays › HTH › HTH › winged helix domain › MSC | 0.51 | 35.0 | 2.67e-01 | 90.4% | 28.2% |
| 4946164 | 1036.1.1.0 ↗ | a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain | 0.50 | 36.0 | 3.53e-01 | 75.5% | 67.6% |
| 4975149 | 1036.1.1.1 ↗ | a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 | 0.50 | 37.0 | 3.66e-01 | 77.7% | 73.0% |
D3
medium
residues 341-360_401-449
Domain cluster:
representative
CATH (14)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1khvA04 | 6.10.140.320 | Special › Helix non-globular › Helix Hairpins › | 0.69 | 45.0 | 4.94e-01 | 71.0% | 87.0% |
| 1dw9A01 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.60 | 43.0 | 3.98e-01 | 75.4% | 85.1% |
| 3sqgB02 | 3.30.70.470 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.60 | 53.0 | 4.16e-01 | 100.0% | 69.0% |
| 1y14A01 | 1.20.1250.40 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › RNA Polymerase II, Rpb4 subunit | 0.59 | 51.0 | 4.26e-01 | 100.0% | 99.2% |
| 1irxA05 | 1.10.10.350 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.57 | 43.0 | 3.93e-01 | 82.6% | 82.8% |
| 3idwA00 | 1.10.150.50 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Transcription Factor, Ets-1 | 0.56 | 44.0 | 4.54e-01 | 100.0% | 90.9% |
| 2f33A03 | 1.10.238.10 | Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand | 0.56 | 46.0 | 4.32e-01 | 94.2% | 81.6% |
| 1xb4B02 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.54 | 37.0 | 3.66e-01 | 75.4% | 66.7% |
| 2vyiA00 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.53 | 38.0 | 3.18e-01 | 78.3% | 93.0% |
| 7ewfB01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.52 | 36.0 | 3.59e-01 | 79.7% | 69.3% |
| 2r4gA01 | 1.10.132.70 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › | 0.51 | 45.0 | 3.34e-01 | 100.0% | 97.8% |
| 2inbA00 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.51 | 43.0 | 3.63e-01 | 98.6% | 89.1% |
| 2j5oA01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.51 | 38.0 | 3.89e-01 | 100.0% | 84.6% |
| 4narA02 | 3.90.226.30 | Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › LarA, C-terminal domain | 0.50 | 43.0 | 3.32e-01 | 98.6% | 86.0% |
ECOD (25)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4294975 | 563.1.1.1 ↗ | alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP | 0.75 | 58.0 | 4.16e-01 | 81.2% | 44.4% |
| 4440435 | 563.1.1.1 ↗ | alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP | 0.72 | 56.0 | 4.11e-01 | 81.2% | 45.9% |
| 4216527 | 563.1.1.1 ↗ | alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP | 0.70 | 53.0 | 4.54e-01 | 81.2% | 72.7% |
| 4192201 | 563.1.1.1 ↗ | alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP | 0.69 | 53.0 | 3.89e-01 | 81.2% | 43.4% |
| 5058334 | 131.1.1.3 ↗ | alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD | 0.69 | 51.0 | 3.63e-01 | 79.7% | 85.1% |
| 3486540 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.68 | 47.0 | 3.21e-01 | 71.0% | 23.2% |
| 3189353 | 548.1.1.1 ↗ | alpha duplicates or obligate multimers › GRIP domain › GRIP domain › GRIP domain › GRIP | 0.66 | 42.0 | 4.83e-01 | 76.8% | 92.0% |
| 4992091 | 2004.1.1.42 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE | 0.64 | 56.0 | 3.40e-01 | 100.0% | 36.7% |
| 3894135 | 109.4.1.27 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › W2 | 0.63 | 51.0 | 3.79e-01 | 88.4% | 42.3% |
| 3171699 | 101.1.1.133 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Vhr1 | 0.63 | 45.0 | 4.04e-01 | 76.8% | 73.0% |
| 3892460 | 548.1.1.1 ↗ | alpha duplicates or obligate multimers › GRIP domain › GRIP domain › GRIP domain › GRIP | 0.62 | 41.0 | 4.37e-01 | 76.8% | 78.3% |
| 4971640 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.61 | 50.0 | 3.20e-01 | 92.8% | 23.9% |
| 4289835 | 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 | 0.60 | 40.0 | 2.85e-01 | 71.0% | 22.4% |
| 3890890 | 109.4.1.342 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SBF2 | 0.59 | 54.0 | 3.57e-01 | 100.0% | 53.4% |
| 5061090 | 4133.1.1.0 ↗ | alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like | 0.57 | 33.0 | 3.30e-01 | 71.0% | 54.3% |
| 3488715 | 109.4.1.27 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › W2 | 0.56 | 45.0 | 3.40e-01 | 92.8% | 44.9% |
| 4009843 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.55 | 45.0 | 3.22e-01 | 89.9% | 86.4% |
| 1907246 | 101.1.2.212 ↗ | alpha arrays › HTH › HTH › winged helix domain › Cac1_C | 0.55 | 38.0 | 3.63e-01 | 75.4% | 61.7% |
| 3697611 | 101.1.2.212 ↗ | alpha arrays › HTH › HTH › winged helix domain › Cac1_C | 0.54 | 36.0 | 3.74e-01 | 76.8% | 73.8% |
| 3824278 | 101.1.2.132 ↗ | alpha arrays › HTH › HTH › winged helix domain › DUF3591 | 0.54 | 37.0 | 3.46e-01 | 71.0% | 78.8% |
| 4942331 | 101.8.1.4 ↗ | alpha arrays › HTH › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › tRNA-synt_1f | 0.53 | 40.0 | 2.80e-01 | 82.6% | 31.4% |
| 3711450 | 101.1.15.0 ↗ | alpha arrays › HTH › HTH › HAT1, C-terminal domain | 0.53 | 34.0 | 3.27e-01 | 71.0% | 55.0% |
| 4972197 | 140.1.1.0 ↗ | alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.53 | 45.0 | 3.31e-01 | 97.1% | 55.8% |
| 3278037 | 101.1.2.48 ↗ | alpha arrays › HTH › HTH › winged helix domain › PadR | 0.52 | 39.0 | 2.80e-01 | 78.3% | 80.0% |
| 3201189 | 10.12.1.21 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › ERG2_Sigma1R | 0.51 | 40.0 | 2.94e-01 | 88.4% | 67.0% |
D4
medium
residues 624-677
Domain cluster:
representative
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3ccyA02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.67 | 52.0 | 3.77e-01 | 83.3% | 91.2% |
| 3rx6A00 | 1.20.58.1090 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phage polarity suppression protein monomer | 0.62 | 54.0 | 3.66e-01 | 96.3% | 33.2% |
D5
medium
residues 678-725_776-838