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RNA-dependent_RNA_polymerase_NS5
Euk-VirZika_virus
RNA-dependent_RNA_polymerase_NS5__YP_009227205__Zika_virus__64320
Identity
- Accession:
- YP_009227205 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase_NS5
- Kingdom:
- euk
Quality
85.4
mean pLDDT
Taxonomy
Orthornavirae›
Kitrinoviricota›
Flasuviricetes›
Amarillovirales›
Flaviviridae›
Orthoflavivirus›
Zika_virus
TaxID: 64320
Cluster
View cluster (51 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 714-892
Domain cluster:
rep: RNA-dependent_RNA_polymerase_NS5__YP_009268628__Hanko_virus__1125677__D698-878
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF20483.4 best | Flavi_NS5_thumb | 247.1 | 1.10e-73 | 87.2% | 95.1% |
D2
medium
residues 55-183
Domain cluster:
rep: RNA-dependent_RNA_polymerase__NP_740729__Louping_ill_virus__11086__D71-170
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01728.26 best | FtsJ | 62.7 | 6.10e-17 | 100.0% | 75.7% |
D3
medium
residues 184-244
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1r6aA00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 1.00 | 97.0 | 6.01e-01 | 100.0% | 23.3% |
| 3iveA01 | 3.60.21.10 | Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases | 0.58 | 51.0 | 3.27e-01 | 100.0% | 94.8% |
| 1jeyB01 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.54 | 45.0 | 3.16e-01 | 100.0% | 39.6% |
| 5kfzA04 | 3.30.1490.100 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain | 0.52 | 43.0 | 3.58e-01 | 100.0% | 69.9% |
| 2e5vA01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.50 | 40.0 | 2.69e-01 | 93.4% | 82.8% |
| 3aonA00 | 1.10.287.3240 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.50 | 38.0 | 2.78e-01 | 85.2% | 68.1% |
ECOD (12)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 321243 | 2003.1.5.15 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ | 1.00 | 96.0 | 5.99e-01 | 100.0% | 23.4% |
| 4868697 | 2003.1.5.15 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ | 0.96 | 91.0 | 5.77e-01 | 100.0% | 23.7% |
| 3588804 | 7523.1.1.0 ↗ | a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II | 0.62 | 42.0 | 3.62e-01 | 75.4% | 45.3% |
| 3330564 | 327.11.2.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 | 0.55 | 39.0 | 3.31e-01 | 73.8% | 78.0% |
| 3744288 | 302.1.1.1 ↗ | a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C | 0.54 | 46.0 | 3.77e-01 | 100.0% | 80.0% |
| 3213018 | 327.11.2.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 | 0.53 | 40.0 | 3.59e-01 | 80.3% | 90.6% |
| 3274762 | 304.102.1.1 ↗ | a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 | 0.53 | 38.0 | 2.54e-01 | 77.0% | 92.2% |
| 3865493 | 5001.1.1.5 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 | 0.52 | 43.0 | 2.91e-01 | 100.0% | 78.9% |
| 4357556 | 2004.1.1.159 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M | 0.52 | 44.0 | 2.95e-01 | 95.1% | 24.6% |
| 5055279 | 1075.1.2.0 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain | 0.51 | 43.0 | 3.03e-01 | 98.4% | 85.9% |
| 3595668 | 2003.1.2.7 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2 | 0.50 | 44.0 | 3.02e-01 | 100.0% | 51.6% |
| 4136502 | 2004.1.1.159 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M | 0.50 | 42.0 | 2.84e-01 | 95.1% | 24.1% |
D4
medium
residues 280-318_346-364
Domain cluster:
rep: RNA-dependent_RNA_polymerase_NS5__YP_009268628__Hanko_virus__1125677__D258-306_330-351
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00972.26 best | Flavi_NS5 | 65.2 | 6.40e-18 | 70.7% | 8.9% |
| PF00972.26 | Flavi_NS5 | 28.8 | 6.70e-07 | 36.2% | 4.4% |
D5
medium
residues 365-395_611-651
Domain cluster:
representative
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00972.26 best | Flavi_NS5 | 50.1 | 2.40e-13 | 59.7% | 9.3% |
| PF00972.26 | Flavi_NS5 | 41.8 | 7.70e-11 | 45.8% | 7.1% |
CATH (20)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 7kfuC02 | 1.20.120.920 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain | 0.67 | 60.0 | 4.16e-01 | 100.0% | 50.6% |
| 3cxbA03 | 1.10.1740.30 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Secreted effector protein SifA helical domain | 0.62 | 48.0 | 4.68e-01 | 95.8% | 74.1% |
| 2kkmA01 | 1.20.1440.170 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Translation machinery-associated protein 16-like | 0.61 | 43.0 | 3.56e-01 | 73.6% | 58.4% |
| 4zqeA03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.61 | 52.0 | 4.82e-01 | 100.0% | 84.4% |
| 5zjgA02 | 1.10.246.130 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Gamma-glutamyltranspeptidase, large (L) subunit, C-terminal domain | 0.60 | 49.0 | 4.33e-01 | 94.4% | 67.0% |
| 2dt5B01 | 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 | 0.59 | 37.0 | 3.73e-01 | 90.3% | 61.6% |
| 3pntA01 | 1.10.10.1660 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Nicotine adenine dinucleotide glycohydrolase, helical linker domain | 0.58 | 43.0 | 4.25e-01 | 88.9% | 76.0% |
| 4i9oA00 | 1.10.246.20 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Coactivator CBP, KIX domain | 0.57 | 45.0 | 4.49e-01 | 95.8% | 83.3% |
| 6f7hA00 | 1.20.1080.10 | Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. | 0.56 | 44.0 | 3.09e-01 | 87.5% | 36.3% |
| 6e1kA01 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.56 | 42.0 | 3.66e-01 | 80.6% | 92.0% |
| 2m6uA00 | 1.20.81.20 | Mainly Alpha › Up-down Bundle › Receptor-associated Protein › | 0.55 | 47.0 | 4.54e-01 | 95.8% | 85.4% |
| 1jvmB00 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.55 | 39.0 | 3.57e-01 | 76.4% | 80.0% |
| 1wdhA02 | 1.10.720.60 | Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › | 0.54 | 38.0 | 3.43e-01 | 75.0% | 72.5% |
| 3l1nA01 | 6.10.140.790 | Special › Helix non-globular › Helix Hairpins › | 0.53 | 35.0 | 4.06e-01 | 77.8% | 96.1% |
| 1pn9B02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.52 | 36.0 | 2.98e-01 | 70.8% | 66.9% |
| 4hehA01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.52 | 34.0 | 3.23e-01 | 70.8% | 57.8% |
| 4m0mA03 | 1.20.1270.430 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.51 | 38.0 | 3.68e-01 | 79.2% | 93.7% |
| 1cunA01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.50 | 36.0 | 3.23e-01 | 75.0% | 70.6% |
| 6yz2A01 | 1.20.120.350 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C | 0.50 | 37.0 | 3.12e-01 | 76.4% | 70.0% |
| 1q2wA03 | 1.10.1840.10 | Mainly Alpha › Orthogonal Bundle › main proteinase (3clpro) structure, domain 3 › main proteinase (3clpro) structure, domain 3 | 0.50 | 41.0 | 3.63e-01 | 88.9% | 87.5% |
ECOD (16)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3297054 | 103.4.1.0 ↗ | 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 | 0.73 | 59.0 | 6.23e-01 | 94.4% | 96.9% |
| 3610001 | 148.1.3.0 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain | 0.71 | 54.0 | 5.07e-01 | 94.4% | 66.7% |
| 3830182 | 142.1.1.21 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › KIX_2 | 0.69 | 56.0 | 5.61e-01 | 95.8% | 85.3% |
| 5079588 | 310.2.1.0 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF | 0.64 | 44.0 | 4.16e-01 | 75.0% | 58.9% |
| 3845878 | 621.1.1.0 ↗ | alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain | 0.61 | 41.0 | 4.07e-01 | 75.0% | 66.7% |
| 3738042 | 142.1.1.0 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors | 0.59 | 46.0 | 4.73e-01 | 94.4% | 91.4% |
| 3597172 | 2002.1.1.44 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › TatD_DNase | 0.58 | 42.0 | 2.64e-01 | 75.0% | 29.1% |
| 3217233 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.57 | 42.0 | 3.89e-01 | 76.4% | 62.2% |
| 3262258 | 5050.1.1.4 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Nucleoside_tran | 0.55 | 40.0 | 3.11e-01 | 77.8% | 80.0% |
| 5012794 | 4333.1.1.0 ↗ | a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain | 0.55 | 47.0 | 3.08e-01 | 100.0% | 47.3% |
| 4031203 | 632.19.1.3 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 | 0.54 | 47.0 | 4.54e-01 | 97.2% | 88.7% |
| 3600204 | 5081.1.1.0 ↗ | alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like | 0.53 | 44.0 | 3.24e-01 | 91.7% | 91.8% |
| 3909490 | 109.1.1.16 ↗ | alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_6 | 0.52 | 41.0 | 3.13e-01 | 84.7% | 53.5% |
| 4031192 | 632.19.1.3 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 | 0.52 | 45.0 | 4.59e-01 | 94.4% | 100.0% |
| 3445760 | 3291.1.1.139 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › KIP1 | 0.52 | 37.0 | 3.57e-01 | 73.6% | 82.5% |
| 4170989 | 150.1.1.59 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Coat_F | 0.51 | 40.0 | 3.18e-01 | 84.7% | 94.0% |
D6
medium
residues 396-610
Domain cluster:
rep: NS5-like_protein__YP_009179403__Wuhan_flea_virus__1746071__D315-356_368-395_444-456_471-503_597-617
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00972.26 best | Flavi_NS5 | 455.9 | 1.90e-136 | 100.0% | 47.7% |