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P1_protein
Euk-VirLettuce_mosaic_virus
P1_protein__NP_734153__Lettuce_mosaic_virus__12202
Identity
- Accession:
- NP_734153 ↗
- Protein ID:
- P1_protein
- Kingdom:
- euk
Quality
70.1
mean pLDDT
Taxonomy
Orthornavirae›
Pisuviricota›
Stelpaviricetes›
Patatavirales›
Potyviridae›
Potyvirus›
Lettuce_mosaic_virus
TaxID: 12202
Cluster
Singleton — not in a non-trivial cluster
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 10-75
Domain cluster:
rep: P1__YP_851199__Blackberry_virus_Y__323118__D18-59
D2
high
residues 297-436
Domain cluster:
rep: P1__YP_010088119__Dendrobium_chlorotic_mosaic_virus__2562807__D286-419
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01577.23 best | Peptidase_S30 | 147.6 | 7.20e-43 | 100.0% | 55.5% |
D3
medium
residues 193-242
Domain cluster:
representative
CATH (31)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1p65A00 | 6.10.140.90 | Special › Helix non-globular › Helix Hairpins › | 0.74 | 39.0 | 3.72e-01 | 72.0% | 42.1% |
| 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 | 0.69 | 43.0 | 2.99e-01 | 98.0% | 19.0% |
| 2qr4A02 | 1.10.287.830 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › putative peptidase helix hairpin domain like | 0.68 | 36.0 | 3.72e-01 | 72.0% | 53.2% |
| 2rdpA00 | 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 | 0.63 | 45.0 | 3.24e-01 | 76.0% | 47.1% |
| 3c1dB01 | 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 | 38.0 | 3.57e-01 | 76.0% | 51.6% |
| 4g59C02 | 3.30.500.30 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › | 0.60 | 41.0 | 2.94e-01 | 72.0% | 67.7% |
| 7uvpA02 | 3.30.70.870 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 | 0.60 | 36.0 | 3.24e-01 | 92.0% | 40.6% |
| 3hwcA03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.60 | 45.0 | 2.99e-01 | 82.0% | 45.7% |
| 4gyiA01 | 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 | 42.0 | 3.48e-01 | 76.0% | 74.2% |
| 7bqiA01 | 1.20.58.900 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › RUN domain | 0.58 | 42.0 | 3.09e-01 | 80.0% | 68.2% |
| 5d8cA00 | 1.10.1660.10 | Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › | 0.57 | 47.0 | 3.65e-01 | 98.0% | 78.6% |
| 3uoxB01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.56 | 44.0 | 2.81e-01 | 92.0% | 44.4% |
| 2rp4A00 | 6.10.280.60 | Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain | 0.56 | 40.0 | 3.54e-01 | 80.0% | 53.5% |
| 1e29A00 | 1.10.760.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain | 0.55 | 39.0 | 2.96e-01 | 86.0% | 29.6% |
| 1t6aA02 | 3.30.310.120 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein | 0.55 | 41.0 | 3.52e-01 | 80.0% | 91.0% |
| 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 | 0.54 | 38.0 | 3.13e-01 | 76.0% | 65.7% |
| 1ye9A03 | 1.10.10.1060 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Catalase HPII, helical domain | 0.54 | 29.0 | 2.82e-01 | 76.0% | 40.4% |
| 7kfuC02 | 1.20.120.920 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain | 0.54 | 46.0 | 3.01e-01 | 96.0% | 58.4% |
| 3go5A02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.54 | 41.0 | 3.70e-01 | 90.0% | 88.6% |
| 1yx1A00 | 3.20.20.150 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Divalent-metal-dependent TIM barrel enzymes | 0.54 | 40.0 | 2.66e-01 | 86.0% | 97.2% |
| 2zhgA00 | 1.10.1660.10 | Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › | 0.54 | 43.0 | 3.47e-01 | 100.0% | 76.9% |
| 1s7hA02 | 3.30.70.930 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.53 | 39.0 | 3.23e-01 | 78.0% | 72.0% |
| 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 | 0.52 | 42.0 | 3.36e-01 | 90.0% | 70.9% |
| 1h2iA01 | 3.30.390.80 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › DNA repair protein Rad52/59/22 | 0.52 | 38.0 | 2.80e-01 | 100.0% | 27.7% |
| 5xuhA00 | 3.90.470.20 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain | 0.52 | 38.0 | 2.96e-01 | 82.0% | 35.2% |
| 2c43A01 | 3.90.470.20 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain | 0.51 | 37.0 | 2.67e-01 | 78.0% | 35.7% |
| 1u7kA00 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.51 | 42.0 | 3.10e-01 | 92.0% | 56.5% |
| 3icyA00 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.50 | 32.0 | 2.51e-01 | 80.0% | 28.0% |
| 2xfvA00 | 3.10.260.30 | Alpha Beta › Roll › Mlu1-box Binding Protein; DNA-binding Domain › | 0.50 | 37.0 | 2.99e-01 | 82.0% | 60.2% |
| 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 | 37.0 | 2.94e-01 | 88.0% | 37.8% |
| 2mp1A00 | 2.40.50.40 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.50 | 39.0 | 3.44e-01 | 88.0% | 58.4% |
ECOD (50)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4025072 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.80 | 41.0 | 3.04e-01 | 80.0% | 21.7% |
| 3806413 | 4133.1.1.0 ↗ | alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like | 0.73 | 41.0 | 2.82e-01 | 86.0% | 17.4% |
| 3350751 | 7564.1.1.1 ↗ | a/b three-layered sandwiches › Homo-oligomeric flavin-containing Cys decarboxylases, HFCD › Homo-oligomeric flavin-containing Cys decarboxylases, HFCD › Homo-oligomeric flavin-containing Cys decarboxylases, HFCD › Flavoprotein | 0.72 | 54.0 | 3.66e-01 | 84.0% | 51.3% |
| 3386710 | 5069.1.1.5 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cyt_bd_oxida_II | 0.69 | 46.0 | 3.03e-01 | 70.0% | 25.4% |
| 3505845 | 101.1.2.407 ↗ | alpha arrays › HTH › HTH › winged helix domain › WHD_ORC2 | 0.68 | 38.0 | 3.05e-01 | 80.0% | 27.0% |
| 3726808 | 4163.1.1.1 ↗ | alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 | 0.66 | 44.0 | 3.04e-01 | 98.0% | 19.4% |
| 4407103 | 327.16.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system | 0.65 | 34.0 | 3.25e-01 | 78.0% | 41.7% |
| 4980177 | 101.1.2.150 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_45 | 0.64 | 45.0 | 3.38e-01 | 74.0% | 57.5% |
| 3547409 | 604.1.1.153 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF4455 | 0.64 | 44.0 | 2.91e-01 | 72.0% | 39.0% |
| 3985490 | 192.2.1.5 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › DUF4376 | 0.64 | 38.0 | 2.83e-01 | 76.0% | 24.2% |
| 3956582 | 589.1.1.22 ↗ | alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain › DUF7158 | 0.63 | 45.0 | 3.06e-01 | 78.0% | 24.2% |
| 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 | 0.62 | 40.0 | 3.60e-01 | 74.0% | 50.8% |
| 4252620 | 109.4.1.1134 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_INTS8_3 | 0.62 | 41.0 | 2.61e-01 | 70.0% | 11.7% |
| 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 | 0.60 | 43.0 | 3.09e-01 | 74.0% | 27.9% |
| 3523591 | 277.1.1.1 ↗ | a+b two layers › PX domain › PX domain › PX domain › PX | 0.60 | 39.0 | 3.06e-01 | 76.0% | 33.0% |
| 3397472 | 192.29.1.203 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › IQUB | 0.58 | 44.0 | 3.44e-01 | 84.0% | 55.7% |
| 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 | 0.58 | 48.0 | 3.41e-01 | 90.0% | 78.6% |
| 3665479 | 109.29.1.1 ↗ | alpha superhelices › Repetitive alpha hairpins › Chloroplast inner membrane protein TIC110 › Chloroplast inner membrane protein TIC110 › Tic110 | 0.58 | 39.0 | 2.24e-01 | 70.0% | 7.6% |
| 3538512 | 3892.1.1.0 ↗ | alpha bundles › Transhydrogeanse domain II › Transhydrogeanse domain II › Transhydrogeanse domain II | 0.58 | 48.0 | 3.31e-01 | 90.0% | 71.2% |
| 4107410 | 304.24.1.0 ↗ | a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like | 0.58 | 34.0 | 2.99e-01 | 78.0% | 38.7% |
| 3284729 | 101.1.9.128 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR, MerR-DNA-bind, MerR_1 | 0.58 | 39.0 | 3.11e-01 | 72.0% | 38.2% |
| 3717247 | 4106.1.1.1 ↗ | few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC | 0.58 | 38.0 | 2.55e-01 | 70.0% | 26.4% |
| 3544534 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.57 | 39.0 | 3.34e-01 | 72.0% | 51.2% |
| 3862747 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.57 | 39.0 | 3.27e-01 | 72.0% | 48.2% |
| 3441766 | 109.4.1.1559 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tic110 | 0.56 | 37.0 | 2.38e-01 | 70.0% | 14.0% |
| 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 | 0.55 | 42.0 | 2.62e-01 | 84.0% | 37.3% |
| 4115648 | 3671.1.1.1 ↗ | alpha duplicates or obligate multimers › Translocated intimin receptor Tir extracellular domain › Translocated intimin receptor Tir extracellular domain › Translocated intimin receptor Tir extracellular domain › Tir_receptor_M | 0.55 | 37.0 | 3.18e-01 | 70.0% | 62.4% |
| 4023459 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.54 | 37.0 | 3.30e-01 | 74.0% | 57.5% |
| 3923920 | 148.1.1.8 ↗ | alpha arrays › Histone-like › Histone-related › Histone › TFIID_30kDa | 0.54 | 39.0 | 3.08e-01 | 78.0% | 78.1% |
| 3937268 | 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 | 0.53 | 36.0 | 2.53e-01 | 72.0% | 24.7% |
| 3938493 | 170.1.1.0 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C | 0.53 | 37.0 | 3.12e-01 | 78.0% | 41.1% |
| 4649222 | 101.1.2.15 ↗ | alpha arrays › HTH › HTH › winged helix domain › MarR | 0.53 | 36.0 | 2.63e-01 | 72.0% | 69.2% |
| 3783976 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.53 | 38.0 | 3.08e-01 | 76.0% | 54.4% |
| 4970833 | 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 | 35.0 | 3.09e-01 | 72.0% | 48.6% |
| 4936380 | 2006.1.2.1 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases › DHH | 0.52 | 45.0 | 2.94e-01 | 100.0% | 34.0% |
| 3487912 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.52 | 41.0 | 3.24e-01 | 88.0% | 53.6% |
| 4084854 | 301.8.1.1 ↗ | a+b three layers › Bacillus chorismate mutase-like › 4'-phosphopantetheinyl transferase › 4'-phosphopantetheinyl transferase › ACPS | 0.52 | 39.0 | 3.11e-01 | 86.0% | 35.8% |
| 3587282 | 142.1.1.10 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › HTH_16 | 0.52 | 37.0 | 3.42e-01 | 78.0% | 57.1% |
| 3378555 | 4133.1.1.2 ↗ | alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Tic110 | 0.52 | 42.0 | 2.82e-01 | 88.0% | 48.6% |
| 3267808 | 101.1.2.625 ↗ | alpha arrays › HTH › HTH › winged helix domain › BRWD1_N | 0.52 | 37.0 | 3.33e-01 | 84.0% | 49.4% |
| 4890753 | 4342.1.1.2 ↗ | alpha complex topology › Tex N-terminal region-like › Tex N-terminal region-like › Tex N-terminal region-like › YqgF | 0.52 | 36.0 | 2.52e-01 | 78.0% | 20.4% |
| 4026519 | 3871.1.1.1 ↗ | alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN | 0.51 | 39.0 | 2.88e-01 | 84.0% | 92.6% |
| 3578504 | 7564.1.1.1 ↗ | a/b three-layered sandwiches › Homo-oligomeric flavin-containing Cys decarboxylases, HFCD › Homo-oligomeric flavin-containing Cys decarboxylases, HFCD › Homo-oligomeric flavin-containing Cys decarboxylases, HFCD › Flavoprotein | 0.51 | 43.0 | 3.07e-01 | 100.0% | 50.0% |
| 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 | 0.51 | 41.0 | 2.90e-01 | 88.0% | 31.6% |
| 3974474 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.51 | 36.0 | 3.06e-01 | 76.0% | 42.2% |
| 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 | 2.70e-01 | 100.0% | 45.9% |
| 4251053 | 4106.1.1.1 ↗ | few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC | 0.51 | 39.0 | 2.49e-01 | 84.0% | 16.5% |
| 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 | 0.51 | 34.0 | 3.21e-01 | 70.0% | 65.0% |
| 3498627 | 7015.1.1.1 ↗ | alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC | 0.50 | 39.0 | 2.46e-01 | 84.0% | 16.5% |
| 3785380 | 5051.1.1.6 ↗ | alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Aa_trans | 0.50 | 41.0 | 2.51e-01 | 100.0% | 18.1% |