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RNA-dependent_RNA_polymerase
Euk-VirYellow_fever_virus
RNA-dependent_RNA_polymerase__NP_776009__Yellow_fever_virus__11089
Identity
- Accession:
- NP_776009 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
85.8
mean pLDDT
Taxonomy
Orthornavirae›
Kitrinoviricota›
Flasuviricetes›
Amarillovirales›
Flaviviridae›
Orthoflavivirus›
Yellow_fever_virus
TaxID: 11089
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 715-890
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 | 251.1 | 6.60e-75 | 89.2% | 95.7% |
D2
medium
residues 6-81_163-264
Domain cluster:
representative
CATH (9)
| 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 | 0.96 | 94.0 | 7.98e-01 | 100.0% | 98.1% |
| 4n49A00 | 3.40.50.12760 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.75 | 70.0 | 5.23e-01 | 97.8% | 88.1% |
| 6xxvC00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.61 | 21.0 | 2.63e-01 | 83.1% | 47.7% |
| 5ezqA02 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.57 | 48.0 | 4.76e-01 | 88.2% | 99.5% |
| 1yjrA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.55 | 21.0 | 3.10e-01 | 88.8% | 80.0% |
| 1cc8A00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.54 | 20.0 | 3.08e-01 | 88.8% | 81.9% |
| 2anrA02 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.52 | 21.0 | 3.33e-01 | 91.6% | 93.3% |
| 2zfzD00 | 3.30.1360.40 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › | 0.51 | 21.0 | 3.00e-01 | 88.8% | 79.7% |
| 5t0oA02 | 3.30.70.1430 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain | 0.50 | 24.0 | 2.99e-01 | 88.8% | 73.8% |
ECOD (15)
| 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 | 0.96 | 94.0 | 7.99e-01 | 100.0% | 98.9% |
| 4868697 | 2003.1.5.15 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ | 0.94 | 91.0 | 7.77e-01 | 99.4% | 99.6% |
| 3262175 | 2003.1.5.15 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ | 0.75 | 69.0 | 5.13e-01 | 97.2% | 84.8% |
| 4499367 | 2003.1.5.15 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ | 0.75 | 65.0 | 4.95e-01 | 91.6% | 81.5% |
| 3204920 | 2003.1.5.15 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ | 0.65 | 55.0 | 4.53e-01 | 88.8% | 99.0% |
| 3831038 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.55 | 23.0 | 3.53e-01 | 88.8% | 92.0% |
| 3970911 | 304.3.1.11 ↗ | a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › MNHE | 0.54 | 23.0 | 2.89e-01 | 88.8% | 61.9% |
| 4926792 | 304.55.2.0 ↗ | a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like | 0.54 | 22.0 | 3.38e-01 | 87.6% | 92.9% |
| 3357746 | 304.12.1.8 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › bHLH-TF_ACT-like_plant | 0.54 | 23.0 | 3.47e-01 | 89.3% | 97.1% |
| 4995243 | 3501.1.1.1 ↗ | a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 | 0.53 | 23.0 | 3.37e-01 | 88.8% | 93.3% |
| 3521944 | 327.11.2.26 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_N4BP1_1st | 0.52 | 21.0 | 3.22e-01 | 88.2% | 92.9% |
| 4113263 | 304.8.1.48 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › MNHE | 0.51 | 22.0 | 3.17e-01 | 88.8% | 89.3% |
| 5050934 | 304.8.1.21 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_9 | 0.51 | 20.0 | 3.20e-01 | 90.4% | 96.9% |
| 5064883 | 328.1.1.0 ↗ | a+b two layers › IF3-like › AlbA-like › AlbA-like | 0.51 | 37.0 | 3.49e-01 | 75.3% | 78.7% |
| 3710854 | 304.3.1.0 ↗ | a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain | 0.51 | 21.0 | 3.08e-01 | 87.6% | 90.0% |
D3
medium
residues 82-162
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 | 36.2 | 8.30e-09 | 100.0% | 45.3% |
D4
medium
residues 265-362_448-477_573-605
Domain cluster:
rep: NS5-like_protein__YP_009179403__Wuhan_flea_virus__1746071__D315-356_368-395_444-456_471-503_597-617
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00972.26 best | Flavi_NS5 | 184.6 | 3.70e-54 | 61.5% | 21.7% |
| PF00972.26 | Flavi_NS5 | 54.2 | 1.40e-14 | 21.1% | 7.5% |
| PF00972.26 | Flavi_NS5 | 58.0 | 9.70e-16 | 19.9% | 6.7% |
D5
medium
residues 363-447_478-499_542-572
Domain cluster:
rep: RdRp__YP_009329892__Hubei_diptera_virus_18__1922879__D81-159_189-211_249-288
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00972.26 best | Flavi_NS5 | 151.2 | 4.90e-44 | 62.3% | 18.9% |
| PF00972.26 | Flavi_NS5 | 32.8 | 4.20e-08 | 23.2% | 6.9% |
| PF00972.26 | Flavi_NS5 | 36.4 | 3.40e-09 | 17.4% | 4.9% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1279063 | 304.48.1.13 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Flavi_NS5 | 0.97 | 94.0 | 6.28e-01 | 100.0% | 48.1% |
| 4875416 | 304.48.1.13 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Flavi_NS5 | 0.85 | 80.0 | 5.62e-01 | 100.0% | 49.0% |
| 1875037 | 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 | 0.74 | 68.0 | 4.88e-01 | 100.0% | 54.0% |
| 5364 | 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 | 0.73 | 66.0 | 4.78e-01 | 100.0% | 53.9% |
D6
medium
residues 500-541_606-714
Domain cluster:
rep: RNA-dependent_RNA_polymerase_NS5__YP_009259365__Quang_Binh_virus__643132__D492-530_608-683
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00972.26 best | Flavi_NS5 | 177.3 | 6.30e-52 | 66.2% | 21.5% |
| PF00972.26 | Flavi_NS5 | 68.9 | 4.80e-19 | 29.8% | 10.0% |