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RdRp

Euk-Vir

Hubei_diptera_virus_18

RdRp__YP_009329892__Hubei_diptera_virus_18__1922879

Identity

Accession:
YP_009329892 ↗
Protein ID:
RdRp
Kingdom:
euk

Quality

94.1 mean pLDDT

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 28-52_401-488
PDB
D2 medium residues 81-159_189-211_249-288
PDB
Domain cluster: representative
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1279063 304.48.1.13 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Flavi_NS5 0.78 73.0 5.03e-01 100.0% 46.2%
4875416 304.48.1.13 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Flavi_NS5 0.76 71.0 5.05e-01 100.0% 47.7%
1875037 304.48.1.8 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1 0.76 71.0 5.08e-01 100.0% 53.8%
217141 304.48.1.15 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_3 0.74 69.0 5.07e-01 100.0% 54.9%
3594976 604.4.1.2 alpha bundles › Spectrin repeat-like › Alpha-hemoglobin stabilizing protein AHSP › Alpha-hemoglobin stabilizing protein AHSP › T4_Rnl2_C 0.50 33.0 3.56e-01 90.1% 80.0%
3706469 604.4.1.0 alpha bundles › Spectrin repeat-like › Alpha-hemoglobin stabilizing protein AHSP › Alpha-hemoglobin stabilizing protein AHSP 0.50 32.0 3.53e-01 88.7% 79.1%
D3 medium residues 160-188_289-313
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5iroD00 2.60.40.3530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 42.0 3.46e-01 94.4% 42.2%
5mteA00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.54 40.0 3.05e-01 79.6% 98.5%
8gzhC01 3.90.1110.10 Alpha Beta › Alpha-Beta Complex › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3 › RNA polymerase Rpb2, domain 2 0.54 40.0 2.85e-01 81.5% 82.9%
6syyA01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.53 41.0 3.17e-01 88.9% 87.7%
5xc5A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 39.0 2.88e-01 98.1% 28.1%
1r94A00 2.60.300.12 Mainly Beta › Sandwich › Hypothetical Protein Aq_1857; Chain: A; › HesB-like domain 0.52 41.0 3.49e-01 92.6% 74.2%
3q9tA02 3.30.560.10 Alpha Beta › 2-Layer Sandwich › Glucose Oxidase; domain 3 › Glucose Oxidase, domain 3 0.51 41.0 2.68e-01 100.0% 39.1%
3tw8A01 3.30.450.200 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin module 0.51 38.0 2.89e-01 83.3% 44.9%
2z1eA02 3.90.650.10 Alpha Beta › Alpha-Beta Complex › Phosphoribosyl-aminoimidazole Synthetase; Chain A, domain 2 › PurM-like C-terminal domain 0.50 35.0 2.64e-01 77.8% 49.1%
3iuzA00 3.10.180.50 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 0.50 36.0 2.38e-01 85.2% 35.0%
1rl4B00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.50 40.0 2.99e-01 94.4% 73.7%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4915198 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 43.0 3.95e-01 100.0% 73.6%
D4 medium residues 212-248_314-400_504-519
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00680.26 best RdRP_1 29.2 5.80e-07 74.3% 20.4%
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6qwtA02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.86 73.0 7.37e-01 88.6% 96.5%
1gx5A03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.85 68.0 7.27e-01 82.1% 98.4%
5jxsA02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.85 73.0 7.32e-01 89.3% 96.5%
3h5xA03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.84 64.0 6.99e-01 77.9% 100.0%
1ra6A02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.83 59.0 6.83e-01 72.9% 100.0%
1khvA03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.83 66.0 6.91e-01 82.9% 100.0%
2r7rA04 3.30.70.2480 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 60.0 5.78e-01 88.6% 79.0%
1hi8A03 3.30.70.1600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 60.0 5.52e-01 88.6% 85.8%
1konA03 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.67 36.0 4.64e-01 72.9% 96.0%
4hkqA01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.66 53.0 5.29e-01 88.6% 82.6%
3mtkA00 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.65 52.0 4.91e-01 82.9% 82.2%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.65 51.0 4.22e-01 81.4% 95.8%
1jihA01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.64 44.0 3.87e-01 70.7% 81.7%
3vtiA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 39.0 4.62e-01 81.4% 89.6%
6zxbA02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.63 49.0 4.91e-01 81.4% 94.4%
4clfA02 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.63 44.0 4.06e-01 71.4% 90.8%
6eibD00 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.63 50.0 4.86e-01 83.6% 86.5%
7e6gA01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.62 48.0 4.77e-01 82.1% 89.9%
1ybtB00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.62 44.0 4.12e-01 73.6% 89.5%
1r89A03 3.30.70.590 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Poly(A) polymerase predicted RNA binding domain 0.61 51.0 5.21e-01 90.0% 97.8%
4x0qA03 3.30.70.370 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 47.0 4.68e-01 80.7% 95.1%
1whvA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.61 36.0 4.20e-01 73.6% 82.0%
2cyyA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.61 40.0 4.71e-01 78.6% 98.9%
3gqcC01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.60 45.0 4.63e-01 79.3% 96.4%
1q8iA04 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.59 50.0 4.39e-01 90.7% 74.2%
4f67A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 36.0 4.09e-01 81.4% 80.2%
2efpA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.59 40.0 4.68e-01 80.7% 99.0%
5t0oA02 3.30.70.1430 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.58 41.0 4.68e-01 81.4% 100.0%
3ng0A02 3.30.590.10 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › Glutamine synthetase/guanido kinase, catalytic domain 0.57 44.0 3.32e-01 80.0% 66.2%
1fi4A02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.57 41.0 3.72e-01 75.7% 99.0%
4mt1A02 3.30.70.1430 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.57 40.0 4.55e-01 81.4% 99.0%
2jgbA01 3.30.760.10 Alpha Beta › 2-Layer Sandwich › RNA Cap, Translation Initiation Factor Eif4e › RNA Cap, Translation Initiation Factor Eif4e 0.57 46.0 4.34e-01 88.6% 94.2%
1s5jA03 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.56 48.0 4.62e-01 91.4% 99.4%
3aawA02 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.56 44.0 4.19e-01 83.6% 78.2%
1j6wA00 3.30.1360.80 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › S-ribosylhomocysteinase (LuxS) 0.55 42.0 4.09e-01 80.7% 100.0%
3h7hB00 3.30.70.940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › NusG, N-terminal domain 0.55 37.0 4.24e-01 75.7% 98.9%
4i6yA02 3.30.70.420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hydroxymethylglutaryl-CoA reductase, class I/II, NAD/NADP-binding domain 0.54 40.0 4.45e-01 78.6% 100.0%
2rkvA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.53 37.0 3.24e-01 70.7% 93.0%
2h5eA03 3.30.70.3280 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptide chain release factor 3, domain III 0.52 41.0 4.20e-01 83.6% 97.1%
2nuhA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 36.0 4.05e-01 81.4% 98.1%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.51 33.0 3.96e-01 79.3% 98.9%
2gffA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 34.0 3.94e-01 77.9% 99.0%
2hfsA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.50 37.0 3.65e-01 76.4% 72.6%
5k9fA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 36.0 4.00e-01 79.3% 100.0%
3k17A02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.50 35.0 3.50e-01 70.0% 83.6%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3483524 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 0.68 56.0 4.33e-01 87.1% 58.4%
4215083 304.48.1.10 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › IMS 0.68 49.0 5.11e-01 74.3% 83.1%
4993060 304.55.2.1 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › Y1_Tnp 0.68 48.0 4.74e-01 72.1% 86.7%
4455319 304.24.1.3 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_III 0.68 38.0 4.90e-01 70.0% 97.5%
3961033 304.154.1.1 a+b two layers › Alpha-beta plaits › Regulator of polyketide synthase expression N-terminal domain › Regulator of polyketide synthase expression N-terminal domain › GGDEF_2 0.65 52.0 4.98e-01 83.6% 80.0%
3961696 304.48.1.48 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GGDEF_2 0.65 52.0 5.09e-01 83.6% 86.7%
4928490 304.48.1.22 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GCH_III 0.65 50.0 4.14e-01 80.7% 78.8%
5082749 304.20.1.4 a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › CAA_C 0.65 46.0 4.45e-01 72.9% 100.0%
3916504 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 47.0 3.76e-01 74.3% 53.3%
3408002 304.8.1.49 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › R1_ABCA1 0.63 41.0 4.60e-01 71.4% 83.6%
5062189 304.24.1.5 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › Trm5_N 0.63 35.0 4.47e-01 81.4% 100.0%
4484241 304.55.2.7 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › tRNA_synt_2f 0.63 47.0 3.98e-01 76.4% 99.1%
5066718 304.20.1.4 a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › CAA_C 0.62 51.0 4.69e-01 87.9% 98.9%
3983443 140.1.1.23 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › tRNA_synt_2f 0.62 45.0 3.91e-01 73.6% 100.0%
3164246 131.1.1.24 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › tRNA_synt_2f 0.61 46.0 3.96e-01 79.3% 97.3%
5046142 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.61 38.0 4.55e-01 79.3% 92.6%
4975915 304.4.1.29 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg_3 0.61 38.0 4.68e-01 80.0% 98.9%
4554584 304.20.1.5 a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › tRNA_synt_2f 0.60 46.0 4.02e-01 79.3% 97.2%
5004971 304.28.1.38 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › CAA_C 0.60 52.0 4.74e-01 94.3% 100.0%
141464 304.20.1.4 a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain › CAA_C 0.60 52.0 4.73e-01 94.3% 96.2%
3593319 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 0.59 44.0 4.03e-01 77.1% 91.4%
3973540 304.55.2.0 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like 0.59 46.0 4.34e-01 81.4% 88.5%
4066774 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 0.59 45.0 4.57e-01 82.9% 82.2%
5026874 304.57.1.1 a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.58 44.0 4.77e-01 78.6% 98.3%
5060819 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.58 39.0 4.62e-01 75.7% 100.0%
4015638 304.6.1.0 a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.58 42.0 3.52e-01 75.7% 70.4%
3164568 304.55.2.1 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › Y1_Tnp 0.58 44.0 4.21e-01 80.7% 85.9%
4971209 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.58 40.0 4.64e-01 79.3% 100.0%
4978605 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 0.58 49.0 3.85e-01 90.7% 76.1%
3914432 304.11.1.13 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 › DUF4708 0.57 42.0 3.87e-01 85.0% 59.4%
4982218 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.56 37.0 4.20e-01 72.9% 89.5%
3987417 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.56 40.0 3.13e-01 73.6% 69.3%
5000652 304.48.1.3 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.56 47.0 4.35e-01 91.4% 100.0%
5073307 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.55 37.0 4.34e-01 78.6% 98.9%
5058264 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.55 37.0 4.26e-01 76.4% 100.0%
5075757 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.54 38.0 4.34e-01 72.9% 100.0%
3696675 304.4.1.11 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › EthD 0.52 36.0 4.03e-01 77.1% 96.2%