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126_kDa_replicase

Euk-Vir

Bell_pepper_mottle_virus

126_kDa_replicase__YP_001333650__Bell_pepper_mottle_virus__368735

Identity

Accession:
YP_001333650 ↗
Protein ID:
126_kDa_replicase
Kingdom:
euk

Quality

71.9 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Martellivirales› Virgaviridae› Tobamovirus› Bell_pepper_mottle_virus

TaxID: 368735

Cluster

View cluster (21 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 687-816
PDB
Domain cluster: rep: replicase__NP_059451__Soil-borne_cereal_mosaic_virus__100887__D845-991
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF20896.3 best ToMV_Hel_N 32.2 1.50e-07 69.2% 60.1%
D2 high residues 822-963
PDB
Domain cluster: rep: KX578043.1__AOT27930.1__X__00015__D87-267
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF01443.25 best Viral_helicase1 98.7 6.20e-28 95.1% 50.4%
PF13245.13 AAA_19 28.0 3.10e-06 85.2% 92.5%
D3 medium residues 18-100
PDB
Domain cluster: rep: 1a_protein__YP_002640500__Gayfeather_mild_mottle_virus__578305__D32-94
D4 medium residues 101-316
PDB
Domain cluster: rep: uncovered_polypeptide_polyprotein__YP_001086452_0-758__Chrysanthemum_virus_B__12165__D72-292
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01660.23 best Vmethyltransf 149.5 1.70e-43 100.0% 60.8%
D5 medium residues 395-473
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1sgmA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.64 55.0 4.19e-01 94.9% 51.1%
3r1wA00 2.160.10.10 Mainly Beta › 3 Solenoid › UDP N-Acetylglucosamine Acyltransferase; domain 1 › Hexapeptide repeat proteins 0.61 48.0 3.68e-01 84.8% 90.6%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 47.0 4.27e-01 86.1% 62.3%
6sc4A00 2.160.10.10 Mainly Beta › 3 Solenoid › UDP N-Acetylglucosamine Acyltransferase; domain 1 › Hexapeptide repeat proteins 0.60 46.0 3.59e-01 83.5% 80.2%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 47.0 4.20e-01 86.1% 60.6%
1cf7B00 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 0.60 49.0 4.92e-01 93.7% 100.0%
3a8tA02 1.10.287.890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain 0.59 49.0 4.31e-01 88.6% 62.2%
2mt9A00 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.59 42.0 3.26e-01 74.7% 99.4%
2jx0A00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.59 47.0 3.93e-01 84.8% 84.0%
2xq9A02 1.20.58.390 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Neurotransmitter-gated ion-channel transmembrane domain 0.58 45.0 3.90e-01 83.5% 93.4%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 45.0 4.25e-01 86.1% 70.2%
5ljmA00 1.20.58.2190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 49.0 3.70e-01 100.0% 77.3%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.56 47.0 3.87e-01 100.0% 92.8%
6t4hA03 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.56 43.0 3.38e-01 82.3% 68.6%
3udcA01 1.10.287.1260 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 41.0 3.62e-01 82.3% 54.8%
1i0zA02 3.90.110.10 Alpha Beta › Alpha-Beta Complex › L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2 › Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal 0.54 44.0 3.51e-01 100.0% 42.9%
7en7A01 3.40.50.10490 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glucose-6-phosphate isomerase like protein; domain 1 0.54 46.0 3.59e-01 97.5% 83.9%
1wj5A01 1.10.10.980 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › CST, Suppressor of Cdc13 homolog, complex subunit STN1, N-terminal domain 0.54 43.0 4.12e-01 92.4% 96.9%
3k4oA00 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.53 40.0 2.85e-01 82.3% 58.8%
3kraC00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.53 46.0 3.25e-01 100.0% 36.2%
3ipiA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.53 48.0 3.29e-01 100.0% 53.7%
1ie9A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.52 46.0 3.26e-01 100.0% 31.0%
1kkmB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 3.11e-01 88.6% 36.7%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.51 45.0 3.54e-01 96.2% 69.5%
2af0A02 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.51 37.0 3.69e-01 82.3% 77.5%
3t38A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.50 42.0 3.61e-01 91.1% 91.4%
4jgwA02 1.10.840.10 Mainly Alpha › Orthogonal Bundle › Son of Sevenless (SoS) protein; Chain S, domain 2 › Ras guanine-nucleotide exchange factors catalytic domain 0.50 43.0 3.16e-01 100.0% 84.2%
3vx4A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 41.0 3.08e-01 97.5% 95.4%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5037321 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.66 54.0 3.50e-01 91.1% 51.6%
4214015 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.64 57.0 5.12e-01 98.7% 82.7%
4939027 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.64 42.0 3.64e-01 96.2% 44.2%
4339431 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.64 37.0 4.08e-01 97.5% 70.8%
3230351 5057.1.1.1 ↗ alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neur_chan_memb 0.63 49.0 3.78e-01 82.3% 87.3%
4564806 4120.1.1.76 ↗ few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP › PDGLE 0.61 46.0 4.56e-01 79.7% 94.1%
3798489 164.1.1.0 ↗ alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II 0.61 53.0 4.80e-01 97.5% 71.8%
3693567 5041.1.1.0 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.60 46.0 4.47e-01 82.3% 90.0%
3244401 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.60 47.0 4.15e-01 84.8% 57.4%
4215095 604.39.1.0 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.60 52.0 3.45e-01 100.0% 70.3%
5074981 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.59 45.0 3.77e-01 83.5% 95.2%
4937431 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.58 47.0 3.64e-01 86.1% 67.9%
3741919 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.58 46.0 4.29e-01 86.1% 69.0%
4953241 3755.3.1.127 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › NFACT_N 0.57 45.0 3.59e-01 86.1% 71.9%
4999971 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.57 48.0 4.57e-01 89.9% 78.9%
4028109 3525.1.1.0 ↗ alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain 0.57 31.0 3.42e-01 81.0% 66.2%
3341391 150.5.1.81 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › Hobbit 0.56 43.0 4.23e-01 82.3% 83.5%
3009971 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 44.0 4.25e-01 84.8% 76.1%
3603791 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.55 44.0 3.56e-01 84.8% 90.7%
3611776 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.55 46.0 3.78e-01 89.9% 77.1%
3757451 3755.3.1.297 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › KIF9 0.54 43.0 3.36e-01 92.4% 41.9%
4073860 5086.1.1.67 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › Neurensin 0.54 41.0 3.41e-01 93.7% 47.4%
4940719 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 47.0 3.82e-01 100.0% 60.8%
4982553 101.1.2.101 ↗ alpha arrays › HTH › HTH › winged helix domain › Cdc6_C 0.53 43.0 3.99e-01 92.4% 70.5%
3808801 192.2.1.31 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › PRA1 0.52 35.0 2.89e-01 74.7% 36.7%
5041715 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.52 43.0 3.84e-01 89.9% 66.4%
4100091 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 43.0 3.12e-01 96.2% 80.7%
5051446 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.51 42.0 3.41e-01 86.1% 92.9%
3587620 304.55.1.22 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › MobL 0.51 41.0 3.02e-01 87.3% 72.4%
3412176 174.1.1.1 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.51 46.0 3.79e-01 98.7% 90.7%
4027178 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 42.0 3.89e-01 94.9% 82.9%
D6 medium residues 554-621
PDB
D7 medium residues 971-1108
PDB
Domain cluster: rep: TGB1_protein__NP_619560__Garlic_latent_virus__12458__D129-228
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01443.25 best Viral_helicase1 74.3 1.80e-20 82.6% 41.2%