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RNA-dependent_RNA_polymerase
Euk-VirVerticillium_dahliae_chrysovirus_1
RNA-dependent_RNA_polymerase__YP_009507948__Verticillium_dahliae_chrysovirus_1__759389
Identity
- Accession:
- YP_009507948 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
73.7
mean pLDDT
Taxonomy
Orthornavirae›
Duplornaviricota›
Chrymotiviricetes›
Ghabrivirales›
Chrysoviridae›
Alphachrysovirus›
Verticillium_dahliae_chrysovirus_1
TaxID: 759389
Cluster
View cluster (8 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 57-261
Domain cluster:
rep: VP2__YP_009665170__Eriocheir_sinensis_reovirus__273810__D721-872
D2
medium
residues 449-464_495-530_559-631_664-723
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 | 24.8 | 1.40e-05 | 34.6% | 12.7% |
D3
medium
residues 531-558_873-986
D4
medium
residues 810-872
Domain cluster:
representative
CATH (36)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4v3iA00 | 1.25.40.590 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type IV / VI secretion system, DotU | 0.75 | 66.0 | 4.90e-01 | 96.8% | 45.1% |
| 3sqiA01 | 1.10.150.540 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › | 0.75 | 65.0 | 5.64e-01 | 98.4% | 63.6% |
| 2a0uB01 | 1.20.120.420 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 | 0.74 | 59.0 | 4.40e-01 | 87.3% | 40.6% |
| 3g3oA00 | 3.20.100.30 | Alpha Beta › Alpha-Beta Barrel › mRNA Triphosphatase Cet1; Chain A › VTC, catalytic tunnel domain | 0.71 | 56.0 | 3.62e-01 | 85.7% | 19.9% |
| 3q4oA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.69 | 57.0 | 4.27e-01 | 95.2% | 81.7% |
| 4m0mA03 | 1.20.1270.430 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.68 | 49.0 | 4.60e-01 | 77.8% | 69.6% |
| 6j7xA01 | 1.25.40.120 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Protein prenylyltransferase | 0.66 | 57.0 | 3.74e-01 | 96.8% | 23.3% |
| 2datA00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.66 | 55.0 | 4.47e-01 | 93.7% | 68.3% |
| 1rrmA02 | 1.20.1090.10 | Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain | 0.66 | 49.0 | 3.45e-01 | 81.0% | 98.0% |
| 2nn4A00 | 1.10.287.760 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like | 0.66 | 49.0 | 4.98e-01 | 88.9% | 83.9% |
| 2z1qB04 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.64 | 48.0 | 3.80e-01 | 81.0% | 53.7% |
| 3ck6C02 | 1.20.58.340 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region | 0.64 | 54.0 | 4.51e-01 | 100.0% | 83.2% |
| 2yqdA00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.64 | 50.0 | 4.11e-01 | 87.3% | 66.7% |
| 5m9dA00 | 1.25.40.90 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.64 | 52.0 | 4.13e-01 | 93.7% | 49.3% |
| 3bjdA02 | 1.20.910.10 | Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like | 0.64 | 49.0 | 3.37e-01 | 84.1% | 32.3% |
| 3e3vA03 | 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 | 0.63 | 46.0 | 4.76e-01 | 84.1% | 87.5% |
| 2lm9A00 | 1.20.58.970 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.62 | 51.0 | 4.60e-01 | 98.4% | 99.0% |
| 5dikA00 | 1.20.1290.10 | Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like | 0.62 | 48.0 | 4.08e-01 | 88.9% | 56.2% |
| 5jrcA00 | 1.20.58.2140 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.61 | 49.0 | 3.65e-01 | 95.2% | 39.2% |
| 1ekjA00 | 3.40.1050.10 | Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase | 0.61 | 49.0 | 3.41e-01 | 88.9% | 74.8% |
| 7p5hB03 | 1.20.1440.230 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain | 0.61 | 51.0 | 4.58e-01 | 95.2% | 75.3% |
| 4ioeA00 | 1.10.287.850 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain | 0.61 | 42.0 | 3.84e-01 | 73.0% | 59.8% |
| 2hfiA00 | 1.20.120.440 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like | 0.60 | 48.0 | 4.05e-01 | 95.2% | 70.7% |
| 2fzfA01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.60 | 47.0 | 3.62e-01 | 87.3% | 88.0% |
| 1u89A00 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.59 | 49.0 | 3.98e-01 | 100.0% | 64.7% |
| 1nafA02 | 1.20.58.160 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.58 | 48.0 | 4.50e-01 | 98.4% | 98.8% |
| 1vkeB00 | 1.20.1290.10 | Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like | 0.58 | 48.0 | 4.24e-01 | 98.4% | 62.4% |
| 2qgsB01 | 1.10.472.50 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like | 0.58 | 39.0 | 3.59e-01 | 71.4% | 51.1% |
| 5je8B02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.57 | 47.0 | 3.79e-01 | 93.7% | 95.3% |
| 3ly7A02 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.56 | 44.0 | 3.43e-01 | 93.7% | 37.3% |
| 1x8zB00 | 1.20.140.40 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein | 0.55 | 45.0 | 3.63e-01 | 100.0% | 55.1% |
| 3bh1A02 | 1.20.1570.10 | Mainly Alpha › Up-down Bundle › dip2346 fold › dip2346 domain like | 0.55 | 39.0 | 3.43e-01 | 76.2% | 77.2% |
| 2f33A03 | 1.10.238.10 | Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand | 0.55 | 43.0 | 4.01e-01 | 92.1% | 73.6% |
| 1wlmA01 | 1.10.238.10 | Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand | 0.53 | 41.0 | 3.57e-01 | 87.3% | 59.2% |
| 3cm0A00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.52 | 43.0 | 3.15e-01 | 92.1% | 80.4% |
| 1o2dA02 | 1.20.1090.10 | Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain | 0.52 | 40.0 | 3.04e-01 | 90.5% | 88.3% |
ECOD (33)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3385836 | 601.1.1.138 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › DUF4118 | 0.72 | 63.0 | 5.28e-01 | 100.0% | 76.4% |
| 3719607 | 601.1.2.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) | 0.68 | 59.0 | 4.45e-01 | 100.0% | 90.9% |
| 3807400 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.68 | 54.0 | 4.46e-01 | 87.3% | 88.7% |
| 3611276 | 4953.1.1.0 ↗ | beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like | 0.67 | 56.0 | 4.83e-01 | 93.7% | 72.0% |
| 3389963 | 1134.1.1.0 ↗ | alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain | 0.67 | 56.0 | 5.49e-01 | 98.4% | 100.0% |
| 3925344 | 7563.1.1.0 ↗ | a/b three-layered sandwiches › MCP/YpsA-related › MCP/YpsA-related › MCP/YpsA-related | 0.67 | 56.0 | 3.66e-01 | 95.2% | 76.6% |
| 3624468 | 109.3.1.8 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank_2 | 0.65 | 49.0 | 4.03e-01 | 84.1% | 49.6% |
| 4942190 | 633.12.1.1 ↗ | alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like › UPF0147 | 0.64 | 54.0 | 4.89e-01 | 95.2% | 72.7% |
| 5068709 | 633.12.1.0 ↗ | alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like | 0.64 | 53.0 | 4.76e-01 | 93.7% | 73.0% |
| 3952621 | 101.35.1.0 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX | 0.64 | 53.0 | 5.19e-01 | 95.2% | 91.3% |
| 4956583 | 633.12.1.1 ↗ | alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like › UPF0147 | 0.64 | 51.0 | 4.54e-01 | 90.5% | 64.9% |
| 3592737 | 1134.1.1.0 ↗ | alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain | 0.63 | 52.0 | 5.23e-01 | 98.4% | 93.8% |
| 3902140 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.63 | 54.0 | 4.81e-01 | 100.0% | 87.4% |
| 4945865 | 633.12.1.0 ↗ | alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like | 0.63 | 49.0 | 4.52e-01 | 90.5% | 68.5% |
| 4585730 | 633.1.1.6 ↗ | alpha bundles › Bromodomain-like › Bromodomain › Bromodomain › PF27833 | 0.63 | 52.0 | 4.40e-01 | 93.7% | 69.1% |
| 3648998 | 604.3.1.1 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › BAG | 0.62 | 53.0 | 4.82e-01 | 100.0% | 86.7% |
| 3208233 | 109.4.1.18 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPTA | 0.61 | 48.0 | 3.61e-01 | 93.7% | 33.5% |
| 3327964 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.60 | 51.0 | 4.72e-01 | 100.0% | 88.2% |
| 3249842 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.60 | 48.0 | 3.31e-01 | 93.7% | 23.5% |
| 4476425 | 304.41.1.1 ↗ | a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N | 0.60 | 49.0 | 3.94e-01 | 98.4% | 77.2% |
| 4580730 | 101.35.1.0 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX | 0.60 | 47.0 | 4.79e-01 | 90.5% | 93.3% |
| 4143595 | 101.11.1.1 ↗ | alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase | 0.60 | 51.0 | 4.54e-01 | 98.4% | 85.3% |
| 3240575 | 4266.2.1.0 ↗ | alpha bundles › Hyaluronidase domain-like › TTHA0068-like › TTHA0068-like | 0.60 | 50.0 | 4.10e-01 | 98.4% | 99.2% |
| 3259966 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.60 | 47.0 | 3.53e-01 | 93.7% | 31.9% |
| 3456467 | 4970.1.1.0 ↗ | alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I | 0.59 | 47.0 | 4.40e-01 | 95.2% | 90.6% |
| 3936005 | 604.12.1.2 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 | 0.58 | 50.0 | 4.30e-01 | 100.0% | 72.4% |
| 3276944 | 604.12.1.2 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 | 0.58 | 50.0 | 4.75e-01 | 100.0% | 97.3% |
| 3585163 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.57 | 46.0 | 4.02e-01 | 95.2% | 80.0% |
| 3699313 | 6155.1.1.4 ↗ | alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MPC | 0.56 | 48.0 | 4.33e-01 | 100.0% | 85.6% |
| 3785509 | 101.1.2.113 ↗ | alpha arrays › HTH › HTH › winged helix domain › RNase_H2-Ydr279 | 0.55 | 42.0 | 3.13e-01 | 92.1% | 84.4% |
| 3698329 | 109.4.1.18 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPTA | 0.55 | 44.0 | 3.18e-01 | 100.0% | 30.0% |
| 3995302 | 5.1.4.158 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_HPS5 | 0.52 | 43.0 | 2.69e-01 | 98.4% | 39.1% |
| 3743053 | 3628.1.1.1 ↗ | a+b complex topology › Transcription factor tau 60 kDa subunit › Transcription factor tau 60 kDa subunit › Transcription factor tau 60 kDa subunit › zf-TFIIIC | 0.52 | 40.0 | 2.99e-01 | 92.1% | 32.1% |
D5
medium
residues 987-1108
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3tjmA02 | 1.10.1470.20 | Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › Fatty acid synthase; domain 2 | 0.67 | 33.0 | 3.76e-01 | 74.6% | 62.2% |
| 3nufB00 | 1.10.1790.10 | Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › PRD domain | 0.65 | 34.0 | 3.60e-01 | 80.3% | 54.5% |
| 3nuwA02 | 3.30.420.310 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain | 0.55 | 36.0 | 3.10e-01 | 74.6% | 40.0% |
| 1vb5A01 | 1.20.120.420 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 | 0.53 | 28.0 | 3.19e-01 | 95.9% | 66.0% |
| 3aqbA00 | 1.20.120.1450 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.53 | 31.0 | 3.05e-01 | 79.5% | 52.6% |
| 2khmA01 | 1.10.10.1350 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain | 0.50 | 30.0 | 3.20e-01 | 72.1% | 67.6% |
ECOD (10)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3675088 | 101.1.10.1 ↗ | alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N | 0.58 | 40.0 | 3.73e-01 | 86.1% | 54.4% |
| 4149518 | 160.1.1.1 ↗ | alpha superhelices › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › ATP-synt_ab_C | 0.58 | 44.0 | 4.36e-01 | 83.6% | 76.2% |
| 3742639 | 101.1.10.1 ↗ | alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N | 0.57 | 39.0 | 3.63e-01 | 86.1% | 56.0% |
| 3989186 | 1075.1.1.0 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain | 0.55 | 39.0 | 3.20e-01 | 76.2% | 91.2% |
| 141271 | 601.17.1.2 ↗ | alpha bundles › Four-helical up-and-down bundle › Group V grass pollen allergen › Group V grass pollen allergen › HexPS-like | 0.53 | 31.0 | 3.05e-01 | 79.5% | 52.6% |
| 4031430 | 4275.1.1.1 ↗ | alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Phage_connect_1 | 0.53 | 38.0 | 4.05e-01 | 85.2% | 85.7% |
| 3924700 | 161.1.1.9 ↗ | alpha complex topology › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Membralin | 0.52 | 45.0 | 3.85e-01 | 100.0% | 88.8% |
| 3627533 | 601.4.1.64 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › Membralin | 0.51 | 45.0 | 3.86e-01 | 99.2% | 100.0% |
| 3388938 | 632.22.1.7 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › Membralin | 0.50 | 44.0 | 3.70e-01 | 100.0% | 83.6% |
| 3560279 | 5026.1.1.2 ↗ | extended segments › PetN subunit of the cytochrome b6f complex › PetN subunit of the cytochrome b6f complex › PetN subunit of the cytochrome b6f complex › Membralin | 0.50 | 44.0 | 3.82e-01 | 99.2% | 100.0% |