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RdRp

Euk-Vir

Aedes_alboannulatus_toti-like_virus_1_Viruses.

RdRp__YP_009388609__Aedes_alboannulatus_toti-like_virus_1_Viruses.__X

Identity

Accession:
YP_009388609 ↗
Protein ID:
RdRp
Kingdom:
euk

Quality

92.1 mean pLDDT

Cluster

View cluster (16 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 medium residues 54-128_152-197
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4rr5A02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.58 29.0 3.75e-01 72.7% 87.5%
2h1yA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.58 29.0 3.65e-01 76.9% 80.0%
1kn6A00 3.30.70.850 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8, pro-domain 0.54 30.0 3.74e-01 70.2% 90.4%
2kjwA00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.53 33.0 3.58e-01 75.2% 76.0%
4mtnA01 3.30.1480.10 Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain 0.52 24.0 2.68e-01 87.6% 51.6%
3onqA02 3.30.70.2730 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 30.0 3.53e-01 72.7% 84.0%
2ghpA03 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 31.0 3.63e-01 78.5% 87.8%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5019046 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.61 30.0 4.08e-01 86.0% 100.0%
5061624 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.59 31.0 4.04e-01 71.9% 100.0%
1833373 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.58 29.0 3.70e-01 76.9% 82.4%
4997446 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.56 31.0 3.47e-01 73.6% 67.8%
5047370 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.56 30.0 3.74e-01 72.7% 87.1%
4943937 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.56 30.0 3.78e-01 70.2% 92.3%
3816888 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.56 30.0 3.69e-01 73.6% 85.7%
3891992 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.55 31.0 3.59e-01 72.7% 78.8%
5040890 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.55 29.0 3.75e-01 72.7% 100.0%
3250106 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.55 30.0 3.63e-01 81.0% 84.0%
3350503 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.55 34.0 3.88e-01 86.8% 87.1%
4972700 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.55 30.0 3.62e-01 72.7% 84.0%
4258303 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.54 31.0 3.65e-01 80.2% 85.3%
3558890 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.54 30.0 3.47e-01 72.7% 74.1%
3810064 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.54 33.0 3.79e-01 79.3% 85.9%
4059360 304.9.1.71 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › SNU71_RBD 0.53 36.0 3.86e-01 77.7% 83.0%
3664175 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.52 30.0 3.40e-01 73.6% 75.3%
4974323 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.52 28.0 3.47e-01 90.1% 90.8%
4944912 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.52 29.0 3.55e-01 72.7% 90.0%
3309238 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.52 33.0 3.78e-01 82.6% 89.4%
3964731 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.52 29.0 3.16e-01 90.1% 63.0%
3669638 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.51 31.0 3.35e-01 81.8% 70.4%
3710853 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.51 30.0 3.49e-01 74.4% 85.0%
135996 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.50 28.0 3.42e-01 75.2% 87.8%
D2 medium residues 246-268_304-369
PDB
Domain cluster: representative
D3 medium residues 370-406_429-519
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02123.22 best RdRP_4 49.3 5.30e-13 100.0% 29.9%
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2r7rA05 1.10.357.80 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.76 61.0 5.48e-01 87.5% 61.9%
2fiaB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.62 32.0 2.98e-01 73.4% 39.0%
6f1eA01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.61 41.0 4.06e-01 75.0% 63.3%
2chpA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.57 44.0 4.21e-01 81.2% 77.7%
3di2A00 1.20.1250.50 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.57 42.0 4.47e-01 87.5% 87.0%
4gc0A02 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.56 42.0 3.53e-01 78.9% 83.2%
4i2aA01 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.56 38.0 4.41e-01 93.0% 95.7%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 42.0 4.04e-01 82.0% 77.2%
1zymA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.54 39.0 3.99e-01 75.8% 100.0%
1p6rA00 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 0.54 29.0 3.46e-01 96.9% 79.3%
1iuqA01 1.10.1200.50 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Glycerol-3-phosphate acyltransferase, alpha helical bundle, N-terminal 0.53 31.0 3.80e-01 71.1% 93.4%
6l3tA01 1.20.1440.80 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Gap junction channel protein cysteine-rich domain 0.53 41.0 3.54e-01 81.2% 96.5%
3n4eA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.52 32.0 3.53e-01 79.7% 76.0%
5x9vA01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.51 42.0 3.42e-01 89.1% 63.7%
4o6kA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.51 39.0 3.90e-01 96.9% 77.9%
4d3dB02 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 0.51 38.0 3.87e-01 78.9% 86.8%
1a22A00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.50 41.0 3.72e-01 89.1% 86.7%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3498557 304.48.1.87 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › PF28514 0.75 66.0 5.29e-01 95.3% 60.0%
2775271 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 0.64 58.0 4.53e-01 99.2% 51.8%
5047770 601.28.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like 0.64 37.0 4.30e-01 73.4% 78.5%
4055608 3826.1.1.21 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › DUF986 0.60 33.0 4.34e-01 70.3% 94.7%
4026165 5050.1.1.28 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › BT1 0.59 42.0 3.48e-01 72.7% 85.3%
4937811 150.1.1.7 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › DUF892 0.57 44.0 4.12e-01 80.5% 77.5%
3918141 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.55 42.0 4.20e-01 78.1% 86.9%
5025501 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.54 41.0 3.38e-01 78.9% 81.3%
4978090 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.53 33.0 2.81e-01 98.4% 36.3%
3420720 7516.1.1.79 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_trans_2_3 0.53 47.0 3.11e-01 98.4% 41.3%
4376234 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.52 40.0 3.21e-01 79.7% 86.5%
5014742 150.1.1.3 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.52 40.0 3.75e-01 80.5% 75.5%
4007623 220.1.1.150 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF986 0.52 33.0 3.93e-01 71.1% 92.2%
4392278 604.12.1.9 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ATG1-like_MIT2 0.50 32.0 3.04e-01 82.0% 53.5%
D4 medium residues 407-428_520-591
PDB
Domain cluster: rep: RNA-directed_RNA-polymerase__YP_009667012__Colletotrichum_gloeosporioides_chrysovirus_1__1766766__D621-641_716-788
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02123.22 best RdRP_4 27.7 1.90e-06 78.7% 15.3%
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hn0A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.58 41.0 3.39e-01 74.5% 88.5%
3bv8A00 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.58 38.0 3.98e-01 77.7% 74.1%
1tuwA00 3.30.70.1090 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel. 0.53 40.0 3.86e-01 79.8% 96.2%
2qv6B02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.53 40.0 3.71e-01 80.9% 98.4%
2b4vA03 3.30.70.1970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 39.0 3.89e-01 79.8% 90.9%
4r5qA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.53 39.0 3.06e-01 78.7% 74.9%
1vk8A00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 39.0 3.97e-01 79.8% 98.9%
1hywA00 3.30.1580.10 Alpha Beta › 2-Layer Sandwich › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W 0.52 30.0 3.47e-01 98.9% 87.9%
1lxjA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 39.0 3.78e-01 79.8% 92.2%
2hiyA02 3.30.70.1260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › bacterial protein sp0830 like 0.51 40.0 4.03e-01 85.1% 95.7%
5i2cB01 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.50 38.0 3.31e-01 80.9% 84.2%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3301018 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.69 38.0 4.71e-01 72.3% 90.9%
4037822 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 0.67 60.0 3.90e-01 100.0% 54.7%
4449545 304.48.1.39 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › MatK_N 0.67 60.0 4.06e-01 100.0% 67.6%
4269228 304.122.1.1 ↗ a+b two layers › Alpha-beta plaits › Nitrogen repressor-like proteins › Nitrogen repressor-like proteins › NRD1_2 0.64 43.0 4.14e-01 70.2% 70.0%
5035757 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.61 43.0 4.17e-01 73.4% 91.4%
4017316 304.8.1.10 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_7 0.59 40.0 3.32e-01 70.2% 66.3%
4987106 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.57 39.0 3.95e-01 72.3% 76.8%
3408055 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.55 38.0 3.91e-01 71.3% 82.2%
3831150 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.55 40.0 4.18e-01 76.6% 84.7%
3768407 304.9.1.18 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › Tap-RNA_bind 0.54 41.0 3.24e-01 80.9% 46.3%
4086329 304.11.1.2 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase › SAT 0.54 39.0 4.29e-01 76.6% 100.0%
3402465 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.53 39.0 4.21e-01 78.7% 100.0%
3838420 304.110.1.0 ↗ a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like 0.53 39.0 4.02e-01 77.7% 90.0%
3387138 304.110.1.0 ↗ a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like 0.53 38.0 4.22e-01 76.6% 100.0%
3675128 304.9.1.20 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_8 0.51 33.0 3.68e-01 73.4% 88.6%
3793409 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.51 38.0 2.94e-01 80.9% 47.1%