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RNA-dependent_RNA_polymerase
Euk-VirUstilaginoidea_virens_RNA_virus_5
RNA-dependent_RNA_polymerase__YP_009182167__Ustilaginoidea_virens_RNA_virus_5__1756615
Identity
- Accession:
- YP_009182167 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
90.7
mean pLDDT
Cluster
View cluster (56 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 7-119
Domain cluster:
representative
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3i3nA02 | 1.25.40.420 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.61 | 39.0 | 4.07e-01 | 81.4% | 68.9% |
| 2pkeA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.55 | 37.0 | 4.26e-01 | 90.3% | 98.7% |
| 2qkmB01 | 1.10.10.1050 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Dcp2, box A domain | 0.52 | 41.0 | 4.32e-01 | 85.8% | 100.0% |
| 1itkA01 | 1.10.520.10 | Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › | 0.51 | 39.0 | 3.68e-01 | 84.1% | 95.8% |
| 4bl7B02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.50 | 36.0 | 3.69e-01 | 82.3% | 78.5% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5048002 | 4953.1.1.0 ↗ | beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like | 0.54 | 39.0 | 3.70e-01 | 74.3% | 83.7% |
| 3090480 | 2006.1.1.18 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD_2 | 0.54 | 46.0 | 3.65e-01 | 93.8% | 50.0% |
| 3959950 | 2006.1.1.44 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase, Hydrolase_like | 0.53 | 45.0 | 3.79e-01 | 93.8% | 62.0% |
| 5075946 | 2006.1.1.18 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD_2 | 0.52 | 43.0 | 3.42e-01 | 92.9% | 52.7% |
D2
medium
residues 142-313_596-640
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02123.22 best | RdRP_4 | 49.8 | 3.70e-13 | 78.3% | 33.8% |
D3
medium
residues 314-442_458-509
Domain cluster:
rep: hypothetical_protein_2__YP_009336713__Beihai_toti-like_virus_4__1922734__D167-187_213-323_360-427
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02123.22 best | RdRP_4 | 117.2 | 1.30e-33 | 100.0% | 41.9% |
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1mukA02 | 3.90.1850.10 | Alpha Beta › Alpha-Beta Complex › RNA-directed RNA polymerase lambda-3 › RNA-directed RNA polymerase lambda-3 | 0.73 | 67.0 | 4.82e-01 | 100.0% | 48.4% |
ECOD (11)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3454701 | 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 | 0.69 | 48.0 | 4.13e-01 | 70.2% | 57.5% |
| 4516798 | 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 | 0.69 | 64.0 | 4.69e-01 | 100.0% | 45.7% |
| 3615272 | 304.48.1.25 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RRM_4 | 0.66 | 61.0 | 4.72e-01 | 100.0% | 54.8% |
| 3598902 | 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 | 0.65 | 60.0 | 4.69e-01 | 100.0% | 55.5% |
| 3960648 | 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 | 59.0 | 4.91e-01 | 100.0% | 64.6% |
| 3792091 | 304.48.1.25 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RRM_4 | 0.60 | 55.0 | 4.43e-01 | 100.0% | 54.5% |
| 4296494 | 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 | 47.0 | 3.97e-01 | 85.1% | 57.0% |
| 5081699 | 186.1.1.4 ↗ | alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 | 0.54 | 26.0 | 3.58e-01 | 87.3% | 91.1% |
| 3920672 | 206.1.1.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase | 0.53 | 25.0 | 3.52e-01 | 77.3% | 91.1% |
| 3684015 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.52 | 29.0 | 3.81e-01 | 82.3% | 98.0% |
| 3921728 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.50 | 29.0 | 3.63e-01 | 82.3% | 90.4% |
D4
medium
residues 443-457_510-595
Domain cluster:
rep: KR816341.1__AKQ06880.1__X__00021__D162-195_238-325
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02123.22 best | RdRP_4 | 96.2 | 3.30e-27 | 85.2% | 17.6% |
D5
medium
residues 641-692_745-778_824-860
Domain cluster:
rep: RNA-dependent_RNA_polymerase__YP_009272905__Fusarium_poae_victorivirus_1__1849535__D612-657_720-746_792-827
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3732507 | 2008.1.1.143 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF7924 | 0.55 | 39.0 | 2.96e-01 | 73.2% | 90.2% |
| 3812094 | 5.1.4.223 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RIC1_2nd | 0.50 | 44.0 | 3.23e-01 | 100.0% | 73.4% |
D6
medium
residues 693-744
Domain cluster:
representative
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3g36B00 | 1.20.890.10 | Mainly Alpha › Up-down Bundle › cAMP-dependent Protein Kinase, Chain A › cAMP-dependent protein kinase regulatory subunit, dimerization-anchoring domain | 0.64 | 45.0 | 4.58e-01 | 82.7% | 72.5% |
| 4xjvA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.55 | 42.0 | 2.95e-01 | 92.3% | 98.6% |
| 2n7zA00 | 1.10.533.10 | Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas | 0.55 | 43.0 | 3.52e-01 | 90.4% | 94.3% |
| 2jfrA00 | 3.60.40.10 | Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain | 0.54 | 40.0 | 2.70e-01 | 86.5% | 21.4% |
| 2dbfA01 | 1.10.533.10 | Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas | 0.51 | 37.0 | 3.34e-01 | 90.4% | 97.8% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3256214 | 109.1.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C | 0.57 | 39.0 | 2.71e-01 | 71.2% | 21.1% |
| 4994269 | 101.1.2.673 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_HVO_0163_N | 0.54 | 37.0 | 3.28e-01 | 75.0% | 74.1% |
| 3531043 | 110.1.1.2 ↗ | alpha arrays › DEATH domain › DEATH domain › DEATH domain › CARD | 0.53 | 41.0 | 3.52e-01 | 92.3% | 76.8% |