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P1_protein

Euk-Vir

Zucchini_yellow_mosaic_virus

P1_protein__NP_734183__Zucchini_yellow_mosaic_virus__12232

Identity

Accession:
NP_734183 ↗
Protein ID:
P1_protein
Kingdom:
euk

Quality

78.4 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Zucchini_yellow_mosaic_virus

TaxID: 12232

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 high residues 176-309
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 164.4 5.40e-48 100.0% 55.9%
PF13611.13 Peptidase_S76 30.4 6.00e-07 69.4% 69.4%
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.54 31.0 3.78e-01 91.8% 91.3%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004871 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.54 27.0 3.16e-01 88.8% 66.7%
4997067 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.51 32.0 3.58e-01 88.8% 81.0%
D2 medium residues 55-123
PDB
Domain cluster: rep: P1_protein__YP_001974436__Fritillary_virus_Y__332471__D63-123
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01577.23 best Peptidase_S30 27.9 2.50e-06 79.7% 19.6%
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.68 51.0 4.40e-01 78.3% 82.7%
4hqeA00 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 39.0 3.48e-01 82.6% 43.8%
2pw4A00 1.10.3300.10 Mainly Alpha › Orthogonal Bundle › Jann2411-like fold › Jann2411-like domain 0.59 41.0 3.01e-01 73.9% 60.7%
5suvC00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.58 42.0 3.42e-01 75.4% 68.0%
6psyA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.58 49.0 3.55e-01 100.0% 63.9%
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 0.57 38.0 2.99e-01 85.5% 32.2%
2wdoA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.56 41.0 3.36e-01 75.4% 66.7%
6xzqA01 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.56 36.0 2.74e-01 73.9% 28.4%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.55 33.0 3.27e-01 78.3% 57.7%
2xzmT00 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 38.0 3.04e-01 73.9% 48.7%
2bddA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.54 38.0 3.11e-01 73.9% 44.1%
1j7xA02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.53 46.0 3.26e-01 97.1% 93.0%
2gqfA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 39.0 2.64e-01 78.3% 33.7%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 44.0 2.97e-01 94.2% 47.8%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 38.0 3.45e-01 76.8% 56.4%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.52 42.0 3.21e-01 88.4% 67.9%
2qx2A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.52 43.0 2.85e-01 95.7% 54.4%
2kx2A00 3.30.780.30 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › 0.52 39.0 3.53e-01 81.2% 84.4%
3gwmA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.52 36.0 2.96e-01 73.9% 45.0%
2i5bA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.52 44.0 2.92e-01 92.8% 75.5%
5c9iD01 1.10.439.10 Mainly Alpha › Orthogonal Bundle › Penicillin Amidohydrolase; domain 1 › Penicillin Amidohydrolase, domain 1 0.51 38.0 3.02e-01 84.1% 93.2%
3go5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 31.0 3.04e-01 72.5% 53.2%
3oopA01 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 38.0 3.04e-01 81.2% 47.0%
4s1hA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.50 36.0 2.46e-01 78.3% 38.7%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2687 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.71 53.0 4.48e-01 78.3% 78.0%
5031824 2004.1.1.220 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SWI2_SNF2 0.71 50.0 2.95e-01 73.9% 10.5%
5042455 101.1.2.92 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_11 0.70 54.0 4.42e-01 79.7% 73.1%
3379132 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.64 45.0 2.89e-01 72.5% 25.7%
3364027 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.64 45.0 3.24e-01 75.4% 41.4%
3305572 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.61 44.0 2.84e-01 75.4% 26.6%
4025072 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.60 40.0 3.38e-01 75.4% 40.9%
3939311 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.60 39.0 3.31e-01 73.9% 41.8%
4996058 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.59 42.0 3.62e-01 75.4% 84.3%
3783976 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.59 39.0 3.55e-01 73.9% 52.2%
3955662 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.59 41.0 3.08e-01 73.9% 52.2%
3707907 320.4.1.3 ↗ a+b two layers › R3H domain-like › PUB domain › PUB domain › PUB 0.59 43.0 3.61e-01 76.8% 70.4%
3223457 101.1.2.661 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_9, POLR3C_WHD 0.58 44.0 2.99e-01 82.6% 31.1%
3935090 7516.1.1.12 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Fringe 0.58 48.0 3.11e-01 89.9% 44.1%
3979431 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.58 43.0 3.34e-01 100.0% 36.0%
3726808 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.57 40.0 3.02e-01 76.8% 28.3%
3230011 6106.1.1.0 ↗ extended segments › Photosystem II protein Y, psbY › Photosystem II protein Y, psbY › Photosystem II protein Y, psbY 0.57 33.0 3.14e-01 95.7% 45.9%
4928633 101.1.2.18 ↗ alpha arrays › HTH › HTH › winged helix domain › Ribosomal_S19e 0.57 39.0 3.50e-01 73.9% 63.8%
3505845 101.1.2.407 ↗ alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 0.56 32.0 2.87e-01 73.9% 39.0%
3242475 101.1.2.137 ↗ alpha arrays › HTH › HTH › winged helix domain › OST-HTH 0.56 32.0 2.97e-01 73.9% 41.1%
4043003 601.7.1.6 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › GlnD_UR_UTase 0.55 43.0 3.25e-01 85.5% 38.2%
3958549 2006.1.2.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases 0.55 39.0 3.02e-01 75.4% 33.1%
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 0.53 42.0 2.80e-01 88.4% 29.8%
1883380 1105.1.1.1 ↗ alpha complex topology › Retinol uptake receptor STRA6 › Retinol uptake receptor STRA6 › Retinol uptake receptor STRA6 › RBP_receptor 0.53 39.0 2.26e-01 76.8% 16.7%
4890753 4342.1.1.2 ↗ alpha complex topology › Tex N-terminal region-like › Tex N-terminal region-like › Tex N-terminal region-like › YqgF 0.53 38.0 2.86e-01 78.3% 27.9%
3989311 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.53 36.0 2.96e-01 71.0% 67.7%
3627409 6166.1.1.1 ↗ alpha bundles › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › ERG4_ERG24 0.53 40.0 2.98e-01 85.5% 32.5%
4936380 2006.1.2.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases › DHH 0.52 43.0 2.90e-01 88.4% 34.4%
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 0.51 41.0 2.86e-01 91.3% 73.7%
3970120 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.51 32.0 2.45e-01 72.5% 23.9%
3700302 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.50 34.0 2.77e-01 71.0% 64.8%
3290009 4107.1.1.1 ↗ alpha arrays › Jann2411-like › Jann2411-like › Jann2411-like › ABATE,zf-CGNR 0.50 38.0 2.88e-01 82.6% 62.4%
3923920 148.1.1.8 ↗ alpha arrays › Histone-like › Histone-related › Histone › TFIID_30kDa 0.50 37.0 3.38e-01 82.6% 87.6%