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RNA-dependent_RNA_polymerase

Euk-Vir

Trichoderma_asperellum_dsRNA_virus_1

RNA-dependent_RNA_polymerase__YP_009553633__Trichoderma_asperellum_dsRNA_virus_1__2305250

Identity

Accession:
YP_009553633 ↗
Protein ID:
RNA-dependent_RNA_polymerase
Kingdom:
euk

Quality

82.9 mean pLDDT

Cluster

View cluster (7 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-61
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1p1mA02 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.51 38.0 2.59e-01 86.4% 42.3%
D2 high residues 80-218
PDB
Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009342055__Trichoderma_atroviride_mycovirus__1934322__D8-115
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1xl7A02 3.30.559.70 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Choline/Carnitine o-acyltransferase, domain 2 0.53 43.0 3.31e-01 86.3% 74.4%
5nfmA00 3.30.300.90 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › BolA-like 0.53 26.0 3.32e-01 91.4% 82.7%
4hvmB01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 41.0 3.72e-01 85.6% 62.2%
2akoA00 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.51 40.0 3.39e-01 84.2% 66.0%
7r9xA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.51 41.0 3.88e-01 85.6% 75.5%
1l5aA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.51 39.0 3.56e-01 85.6% 60.2%
4jn3A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.50 40.0 3.53e-01 85.6% 63.7%
6dx5A00 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.50 41.0 3.88e-01 87.8% 88.2%
4zxwB01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.50 40.0 3.77e-01 85.6% 71.5%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4068264 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.55 45.0 3.94e-01 87.1% 61.0%
4204908 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.55 45.0 3.84e-01 87.1% 60.5%
4172492 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.55 44.0 3.91e-01 87.1% 60.5%
4191267 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.54 43.0 3.97e-01 87.1% 68.1%
1173387 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.54 42.0 4.16e-01 85.6% 77.0%
3911200 323.1.1.6 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Carn_acyltransf 0.53 43.0 2.85e-01 87.1% 39.3%
3278102 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.52 42.0 3.83e-01 87.1% 64.3%
3290670 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.52 42.0 3.89e-01 87.1% 68.3%
4985278 2004.1.1.85 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ArsA_ATPase 0.52 40.0 3.10e-01 82.0% 97.1%
3196510 282.1.1.0 ↗ a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain 0.51 37.0 3.69e-01 76.3% 96.0%
5049476 281.1.1.2 ↗ a+b three layers › AraD-like aldolase/epimerase › AraD-like aldolase/epimerase › AraD-like aldolase/epimerase › ThiP_synth 0.51 46.0 4.20e-01 99.3% 87.0%
3739151 323.1.1.14 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AATase 0.50 39.0 3.69e-01 87.1% 66.9%
1557235 323.1.1.5 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation 0.50 41.0 3.71e-01 85.6% 67.6%
5027468 281.1.1.2 ↗ a+b three layers › AraD-like aldolase/epimerase › AraD-like aldolase/epimerase › AraD-like aldolase/epimerase › ThiP_synth 0.50 45.0 4.17e-01 99.3% 88.9%
D3 high residues 221-380
PDB
Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009272909__Fusarium_poae_mycovirus_1__1849542__D237-378
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3wfdC00 1.10.760.10 Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain 0.53 35.0 3.72e-01 90.0% 75.4%
4l7aA00 3.40.390.70 Alpha Beta › 3-Layer(aba) Sandwich › Collagenase (Catalytic Domain) › 0.51 39.0 3.39e-01 80.0% 97.7%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3836802 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.52 40.0 3.93e-01 80.0% 95.3%
3826910 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.51 40.0 4.05e-01 81.2% 94.4%
D4 high residues 858-1003
PDB
Domain cluster: rep: VP2__YP_009665170__Eriocheir_sinensis_reovirus__273810__D721-872
D5 medium residues 412-448_539-560_591-624_626-673
PDB
Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009342055__Trichoderma_atroviride_mycovirus__1934322__D310-326_384-417_467-550_629-645
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7yilA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 28.0 3.63e-01 76.6% 88.0%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3710958 1128.1.1.0 ↗ alpha bundles › LYR protein › LYR protein › LYR protein 0.54 28.0 3.35e-01 89.4% 73.7%
3580090 5067.1.1.0 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.53 33.0 3.48e-01 84.4% 67.7%
D6 medium residues 1109-1153_1249-1328
PDB
Domain cluster: representative
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 29.0 4.17e-01 95.2% 82.3%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.59 37.0 3.66e-01 92.0% 58.5%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.58 27.0 3.84e-01 88.0% 91.8%
4gzrB00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 30.0 3.75e-01 96.0% 81.8%
1v9vA01 1.20.1480.20 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › MAST3 pre-PK domain-like 0.52 28.0 3.20e-01 92.8% 67.4%
1chuA03 1.20.58.100 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain 0.50 27.0 3.24e-01 93.6% 75.0%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4933335 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.65 26.0 3.25e-01 95.2% 57.5%
3614078 3922.1.1.0 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.61 29.0 2.96e-01 93.6% 45.8%
4972182 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.58 29.0 3.90e-01 94.4% 88.6%
5055477 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.57 28.0 3.52e-01 93.6% 75.0%
5076876 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.56 30.0 3.71e-01 95.2% 81.2%
4977808 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.56 30.0 3.92e-01 92.8% 92.9%
4947260 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.56 32.0 3.91e-01 99.2% 87.5%
3480264 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.56 33.0 3.71e-01 95.2% 75.8%
4988222 4044.1.1.0 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.55 31.0 3.88e-01 89.6% 87.5%
5058790 133.2.1.1 ↗ alpha bundles › DH domain-like › Methenyltetrahydrofolate cyclohydrolase-like › Methenyltetrahydrofolate cyclohydrolase-like › FTCD_C 0.55 36.0 3.18e-01 94.4% 44.3%
4978312 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.55 25.0 3.25e-01 96.8% 74.3%
5007621 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.53 30.0 3.43e-01 89.6% 73.7%
5012651 150.1.1.3 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.51 29.0 3.50e-01 96.0% 82.4%
3990335 604.12.1.5 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › SUV3_C 0.51 28.0 3.31e-01 95.2% 76.5%
3612915 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.51 36.0 3.86e-01 93.6% 84.8%