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P1

Euk-Vir

Tobacco_vein_banding_mosaic_virus

P1__YP_001552412__Tobacco_vein_banding_mosaic_virus__33765

Identity

Accession:
YP_001552412 ↗
Protein ID:
P1
Kingdom:
euk

Quality

73.8 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Tobacco_vein_banding_mosaic_virus

TaxID: 33765

Cluster

View cluster (35 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 165-307
PDB
Domain cluster: rep: P1__YP_006908980__Rose_yellow_mosaic_virus__1048434__D303-423
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF01577.23 best Peptidase_S30 89.0 5.50e-25 99.3% 54.7%
PF13611.13 Peptidase_S76 98.9 3.90e-28 69.2% 73.6%
D2 medium residues 55-107
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gxgA00 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 0.75 55.0 3.97e-01 100.0% 29.3%
4esbA00 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 0.72 39.0 3.09e-01 81.1% 26.2%
3r0aA00 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 0.72 55.0 4.21e-01 83.0% 67.5%
1adoA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.70 40.0 2.39e-01 90.6% 8.0%
4k7cA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.70 43.0 2.58e-01 98.1% 8.4%
4mz0B05 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.66 32.0 2.97e-01 79.2% 37.3%
5e1wA00 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 0.64 44.0 3.11e-01 71.7% 61.9%
3go5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.62 41.0 3.63e-01 81.1% 44.3%
1sfxB00 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 0.61 45.0 3.69e-01 81.1% 74.0%
6psyA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.60 52.0 3.45e-01 100.0% 78.9%
3agrA02 3.30.420.540 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.58 44.0 2.73e-01 88.7% 99.7%
3gdzB00 3.30.1360.70 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Arginyl tRNA synthetase N-terminal domain 0.58 39.0 3.15e-01 71.7% 67.3%
2ethA00 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 0.57 48.0 3.56e-01 98.1% 84.4%
1whyA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.56 30.0 2.77e-01 84.9% 33.3%
2bddA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.55 43.0 3.27e-01 86.8% 62.2%
8be0A01 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.55 46.0 3.22e-01 98.1% 78.0%
6ui4A01 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.53 39.0 3.39e-01 83.0% 56.8%
2wdoA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.52 42.0 3.21e-01 88.7% 65.0%
3hwcA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.52 46.0 3.04e-01 98.1% 61.9%
3cjnA00 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 0.52 39.0 3.03e-01 90.6% 63.0%
1cc8A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 31.0 2.81e-01 73.6% 44.4%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.52 45.0 3.72e-01 98.1% 71.3%
1uwdA00 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.51 36.0 3.04e-01 77.4% 84.3%
3tp2B02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 40.0 3.31e-01 84.9% 70.5%
6juvB01 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 0.51 39.0 3.50e-01 100.0% 58.7%
3m8eA00 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 0.51 37.0 3.04e-01 77.4% 73.3%
1p4xA02 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 0.51 42.0 3.30e-01 94.3% 91.1%
2mh9A00 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 0.50 40.0 3.21e-01 96.2% 92.1%
4v1al00 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.50 36.0 2.83e-01 81.1% 37.6%
2fbhA00 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 0.50 45.0 3.30e-01 100.0% 64.2%
2pw4A00 1.10.3300.10 Mainly Alpha › Orthogonal Bundle › Jann2411-like fold › Jann2411-like domain 0.50 45.0 3.07e-01 100.0% 63.9%
5xuhA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.50 43.0 3.27e-01 96.2% 86.4%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3627712 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.77 58.0 3.28e-01 81.1% 7.4%
3776345 327.11.2.14 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_9 0.75 41.0 3.33e-01 81.1% 30.5%
3714022 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 0.72 34.0 3.32e-01 86.8% 40.0%
3304324 101.1.2.106 ↗ alpha arrays › HTH › HTH › winged helix domain › Tam41_Mmp37 0.71 40.0 2.92e-01 81.1% 21.5%
3970671 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.67 45.0 4.00e-01 92.5% 49.3%
3726808 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.67 51.0 3.64e-01 92.5% 26.1%
3205290 109.26.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nucleoporin_C 0.67 48.0 2.66e-01 77.4% 10.8%
3210565 101.1.2.267 ↗ alpha arrays › HTH › HTH › winged helix domain › Nse4_C 0.66 48.0 3.44e-01 98.1% 27.6%
4025072 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.65 44.0 3.39e-01 96.2% 33.0%
3530542 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.64 53.0 3.27e-01 94.3% 87.6%
3519143 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.64 46.0 2.86e-01 77.4% 15.4%
3998938 6110.1.1.1 ↗ alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › DHC_N2 0.63 50.0 2.85e-01 100.0% 8.8%
3938116 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.61 52.0 3.35e-01 96.2% 77.6%
3785086 870.1.1.1 ↗ a+b two layers › Hypothetical protein Yml108w › Hypothetical protein Yml108w › Hypothetical protein Yml108w › DUF1892 0.59 34.0 3.02e-01 100.0% 34.1%
3532393 5050.1.1.6 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › OATP 0.59 48.0 3.12e-01 98.1% 20.5%
3508428 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 50.0 3.50e-01 98.1% 67.2%
3164240 3012.1.1.0 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.58 46.0 4.22e-01 96.2% 65.7%
3715658 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.58 48.0 3.13e-01 94.3% 20.0%
3611700 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.58 46.0 2.85e-01 90.6% 15.3%
5064344 7584.1.1.1 ↗ a/b three-layered sandwiches › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › AMP-binding 0.58 39.0 2.90e-01 71.7% 82.6%
3960610 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 49.0 3.29e-01 100.0% 66.0%
4226469 310.1.1.2 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arg_tRNA_synt_N 0.57 40.0 3.22e-01 73.6% 62.7%
3425666 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.57 42.0 3.28e-01 84.9% 78.5%
5017587 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 41.0 3.65e-01 81.1% 87.1%
3505845 101.1.2.407 ↗ alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.57 40.0 3.31e-01 75.5% 81.0%
4093657 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.57 38.0 2.81e-01 73.6% 27.4%
3851221 5050.1.1.6 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › OATP 0.57 50.0 3.11e-01 98.1% 44.3%
5029842 101.1.2.645 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_40 0.57 39.0 3.23e-01 75.5% 73.3%
3707907 320.4.1.3 ↗ a+b two layers › R3H domain-like › PUB domain › PUB domain › PUB 0.56 44.0 3.54e-01 90.6% 78.3%
4965712 101.1.2.141 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_24 0.56 42.0 3.53e-01 83.0% 78.9%
3589448 3227.1.1.1 ↗ alpha complex topology › phosphorylation-coupled saccharide transporter ChbC › phosphorylation-coupled saccharide transporter ChbC › phosphorylation-coupled saccharide transporter ChbC › PTS_EIIC 0.55 46.0 2.77e-01 100.0% 32.0%
3439131 101.1.2.407 ↗ alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.55 38.0 3.12e-01 75.5% 78.0%
5049161 177.1.1.0 ↗ alpha bundles › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease 0.54 47.0 3.14e-01 98.1% 26.2%
3364027 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.54 40.0 2.79e-01 86.8% 38.1%
5057064 101.1.2.31 ↗ alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha 0.54 41.0 3.36e-01 86.8% 42.7%
4023459 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 38.0 3.41e-01 77.4% 100.0%
3582440 4.1.1.107 ↗ beta barrels › SH3 › SH3 › SH3 › XRN1_D1 0.54 39.0 2.81e-01 83.0% 82.2%
3168448 101.1.2.154 ↗ alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.54 46.0 3.47e-01 96.2% 79.8%
4417105 2004.1.1.77 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87,HerA_C 0.53 44.0 2.59e-01 90.6% 12.2%
5053763 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 37.0 3.21e-01 75.5% 80.0%
3404153 210.2.1.0 ↗ a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain 0.53 46.0 2.79e-01 98.1% 38.3%
3278423 327.1.1.7 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Alpha-lytic protease prodomain › Alpha-lytic protease prodomain › PF28778 0.53 43.0 4.19e-01 90.6% 93.3%
3879800 601.3.1.8 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › IQUB 0.53 44.0 3.33e-01 96.2% 52.1%
3237518 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.53 38.0 3.14e-01 75.5% 83.3%
3775826 4016.1.1.0 ↗ alpha bundles › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase 0.53 46.0 3.35e-01 98.1% 86.9%
3560659 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.53 46.0 2.85e-01 100.0% 73.4%
3680635 101.1.2.154 ↗ alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.52 39.0 3.21e-01 83.0% 85.7%
4615793 101.1.2.92 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_11 0.52 44.0 3.73e-01 98.1% 56.7%
3261727 101.1.2.111 ↗ alpha arrays › HTH › HTH › winged helix domain › RQC 0.52 40.0 3.19e-01 86.8% 48.7%
4553926 310.1.1.2 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arg_tRNA_synt_N 0.52 36.0 2.90e-01 73.6% 64.5%
3432076 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.52 43.0 3.49e-01 98.1% 47.3%
5011827 304.4.1.2 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › MIase 0.52 45.0 3.64e-01 98.1% 52.0%
4029258 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.52 36.0 3.27e-01 73.6% 100.0%
4240628 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.51 39.0 2.65e-01 86.8% 92.7%
2702235 101.1.2.407 ↗ alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.51 38.0 3.09e-01 83.0% 79.1%
3590781 101.1.2.92 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_11 0.50 41.0 3.54e-01 96.2% 61.1%