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RNA-dependent_RNA_polymerase
Euk-VirMacrobrachium_rosenbergii_nodavirus
RNA-dependent_RNA_polymerase__NP_919036__Macrobrachium_rosenbergii_nodavirus__222557
Identity
- Accession:
- NP_919036 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
70.5
mean pLDDT
Taxonomy
Orthornavirae›
Kitrinoviricota›
Magsaviricetes›
Nodamuvirales›
Nodaviridae›
Macrobrachium_rosenbergii_nodavirus
TaxID: 222557
Cluster
View cluster (6 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 15-84
D2
high
residues 755-885
Domain cluster:
rep: hypothetical_protein__YP_009337806__Shuangao_insect_virus_11__1923467__D743-868
D3
medium
residues 189-242_306-393
Domain cluster:
rep: hypothetical_protein__YP_009329958__Beihai_noda-like_virus_18__1922471__D201-230_309-395
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF19222.6 best | Noda_Vmethyltr | 60.8 | 1.70e-16 | 41.5% | 32.4% |
D4
medium
residues 243-305
Domain cluster:
representative
CATH (19)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5cxoB00 | 3.10.450.50 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.67 | 50.0 | 3.97e-01 | 95.2% | 38.8% |
| 1h6fA00 | 2.60.40.820 | Mainly Beta › Sandwich › Immunoglobulin-like › Transcription factor, T-box | 0.63 | 52.0 | 3.72e-01 | 92.1% | 60.3% |
| 4jgwA01 | 1.20.870.10 | Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 | 0.63 | 38.0 | 2.89e-01 | 85.7% | 25.0% |
| 1ms9A01 | 2.120.10.10 | Mainly Beta › 6 Propeller › Neuraminidase › | 0.61 | 52.0 | 3.27e-01 | 100.0% | 28.5% |
| 1p97A00 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.60 | 42.0 | 3.49e-01 | 90.5% | 40.4% |
| 1iicA02 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.59 | 40.0 | 2.77e-01 | 87.3% | 18.5% |
| 6yfiB01 | 3.30.380.10 | Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein | 0.57 | 37.0 | 2.95e-01 | 87.3% | 30.4% |
| 2bolA03 | 2.60.40.790 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.56 | 38.0 | 3.46e-01 | 100.0% | 48.4% |
| 2aj7A00 | 2.30.290.10 | Mainly Beta › Roll › BH3618-like › BH3618-like | 0.55 | 40.0 | 3.07e-01 | 92.1% | 31.8% |
| 1wv4B00 | 2.30.110.10 | Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A | 0.55 | 37.0 | 2.89e-01 | 87.3% | 29.2% |
| 4jf8A00 | 3.10.450.230 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein | 0.54 | 41.0 | 3.16e-01 | 82.5% | 38.9% |
| 7b1cD01 | 2.10.90.10 | Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines | 0.53 | 36.0 | 3.28e-01 | 71.4% | 53.4% |
| 3qi7A03 | 3.30.30.130 | Alpha Beta › 2-Layer Sandwich › Defensin A-like › | 0.53 | 29.0 | 3.30e-01 | 82.5% | 71.1% |
| 4o3vA00 | 3.10.450.230 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein | 0.52 | 39.0 | 3.16e-01 | 92.1% | 39.1% |
| 1yc9A02 | 2.20.200.10 | Mainly Beta › Single Sheet › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) | 0.52 | 40.0 | 3.73e-01 | 87.3% | 69.9% |
| 2xvlA05 | 2.60.40.1180 | Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II | 0.51 | 34.0 | 2.87e-01 | 88.9% | 36.1% |
| 2re7A00 | 2.30.110.10 | Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A | 0.51 | 40.0 | 3.21e-01 | 87.3% | 47.7% |
| 4kz1A00 | 3.10.450.230 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein | 0.50 | 38.0 | 3.11e-01 | 87.3% | 42.2% |
| 2i02A00 | 2.30.110.10 | Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A | 0.50 | 39.0 | 3.10e-01 | 87.3% | 45.7% |
ECOD (25)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| None | — | 0.66 | 51.0 | 2.83e-01 | 85.7% | 6.6% | |
| 3605629 | 2492.1.1.2 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB | 0.63 | 45.0 | 3.19e-01 | 87.3% | 24.6% |
| 3484065 | 11.1.5.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f | 0.63 | 53.0 | 3.76e-01 | 93.7% | 58.4% |
| 3312219 | 706.2.1.5 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › Tim44 | 0.62 | 50.0 | 4.85e-01 | 90.5% | 94.3% |
| 3203449 | 3195.1.1.1 ↗ | extended segments › Mediator of RNA polymerase II transcription subunit 6 › Mediator of RNA polymerase II transcription subunit 6 › Mediator of RNA polymerase II transcription subunit 6 › Med6 | 0.58 | 46.0 | 3.33e-01 | 88.9% | 35.1% |
| 3741194 | 2484.1.1.1 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 | 0.57 | 45.0 | 2.84e-01 | 92.1% | 69.5% |
| 3423894 | 9.3.1.0 ↗ | beta barrels › Lipocalins/Streptavidin › Quinohemoprotein amine dehydrogenase A chain, domain 3-like › Quinohemoprotein amine dehydrogenase A chain, domain 3-like | 0.57 | 44.0 | 3.22e-01 | 87.3% | 47.2% |
| 3591503 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.56 | 45.0 | 3.48e-01 | 88.9% | 66.2% |
| 5000297 | 4010.1.1.0 ↗ | a+b complex topology › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase | 0.56 | 48.0 | 3.07e-01 | 100.0% | 47.5% |
| 4024695 | 2484.1.1.15 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › GDA1_CD39 | 0.55 | 48.0 | 3.65e-01 | 100.0% | 79.4% |
| 3213184 | 573.1.1.6 ↗ | alpha duplicates or obligate multimers › Soluble domain of poliovirus core protein 3a › Soluble domain of poliovirus core protein 3a › Soluble domain of poliovirus core protein 3a › LMF1_C | 0.55 | 45.0 | 3.52e-01 | 90.5% | 93.5% |
| 3600460 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.54 | 47.0 | 2.89e-01 | 100.0% | 52.4% |
| 4030001 | 5.1.4.621 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Mcl1_mid | 0.53 | 43.0 | 2.53e-01 | 100.0% | 12.1% |
| 3395786 | 5.1.4.1 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 | 0.53 | 39.0 | 2.53e-01 | 100.0% | 15.0% |
| 4023152 | 5.1.5.115 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40, Beta-prop_WDR3_2nd | 0.53 | 36.0 | 2.29e-01 | 73.0% | 93.1% |
| 3452171 | 2484.1.1.1 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 | 0.52 | 44.0 | 3.06e-01 | 100.0% | 75.6% |
| 3442241 | 5.1.3.118 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 | 0.51 | 45.0 | 2.91e-01 | 100.0% | 27.3% |
| 4236832 | 230.1.1.1 ↗ | a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › Uricase | 0.51 | 40.0 | 3.18e-01 | 95.2% | 81.2% |
| 3675798 | 883.1.1.20 ↗ | a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like › SMP_MUG190-like | 0.51 | 39.0 | 2.77e-01 | 87.3% | 31.4% |
| 3582462 | 243.1.1.0 ↗ | a+b two layers › Cystatin-like › NTF2-like › NTF2-like | 0.51 | 39.0 | 2.94e-01 | 87.3% | 49.1% |
| 3217597 | 109.6.1.2 ↗ | alpha superhelices › Repetitive alpha hairpins › Ras GEF › Ras GEF › RasGEF,RasGEF_N | 0.51 | 35.0 | 2.17e-01 | 74.6% | 84.4% |
| 3894561 | 221.1.2.16 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › MTRES1_C | 0.51 | 36.0 | 3.24e-01 | 88.9% | 50.0% |
| 4966376 | 2484.1.1.59 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA | 0.50 | 42.0 | 2.74e-01 | 100.0% | 27.0% |
| 4484391 | 230.1.1.5 ↗ | a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 | 0.50 | 39.0 | 3.20e-01 | 85.7% | 64.0% |
| 5081719 | 298.1.1.24 ↗ | a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 | 0.50 | 36.0 | 2.82e-01 | 82.5% | 79.4% |
D5
medium
residues 452-519_553-569_603-664
D6
medium
residues 570-602_665-750