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P1_protein
Euk-VirPokeweed_mosaic_virus
P1_protein__YP_008719788__Pokeweed_mosaic_virus__1220025
Identity
- Accession:
- YP_008719788 ↗
- Protein ID:
- P1_protein
- Kingdom:
- euk
Quality
73.2
mean pLDDT
Taxonomy
Orthornavirae›
Pisuviricota›
Stelpaviricetes›
Patatavirales›
Potyviridae›
Potyvirus›
Pokeweed_mosaic_virus
TaxID: 1220025
Cluster
View cluster (35 members)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 49-102
Domain cluster:
representative
CATH (35)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2zdiB00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.89 | 60.0 | 4.68e-01 | 77.8% | 35.8% |
| 1fxkB00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.81 | 55.0 | 4.32e-01 | 77.8% | 34.9% |
| 1qviA01 | 1.20.120.720 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain | 0.80 | 57.0 | 4.43e-01 | 75.9% | 62.6% |
| 4mtnA01 | 3.30.1480.10 | Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain | 0.77 | 44.0 | 3.61e-01 | 74.1% | 32.6% |
| 1xexB00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.76 | 50.0 | 3.49e-01 | 70.4% | 22.4% |
| 3l7wA00 | 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 | 0.70 | 49.0 | 3.87e-01 | 72.2% | 77.1% |
| 1ub9A00 | 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 | 0.70 | 47.0 | 3.79e-01 | 70.4% | 71.0% |
| 1p4xA01 | 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 | 47.0 | 3.56e-01 | 70.4% | 55.1% |
| 1zcdA00 | 1.20.1530.10 | Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › Na+/H+ antiporter like domain | 0.67 | 45.0 | 2.72e-01 | 70.4% | 43.9% |
| 2eshA00 | 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 | 0.67 | 45.0 | 3.50e-01 | 70.4% | 86.8% |
| 6yiiA01 | 3.30.70.1230 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain | 0.65 | 45.0 | 2.95e-01 | 72.2% | 42.3% |
| 4hn3A00 | 3.10.570.10 | Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain | 0.65 | 44.0 | 2.69e-01 | 70.4% | 12.0% |
| 4l80D00 | 3.20.20.60 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains | 0.65 | 40.0 | 2.46e-01 | 74.1% | 9.6% |
| 3ezjA02 | 3.30.1370.120 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › | 0.65 | 45.0 | 4.20e-01 | 74.1% | 100.0% |
| 7l9pK01 | 3.30.900.10 | Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain | 0.64 | 42.0 | 3.28e-01 | 72.2% | 31.1% |
| 3pieC05 | 2.170.260.40 | Mainly Beta › Beta Complex › paz domain › | 0.63 | 43.0 | 3.04e-01 | 70.4% | 25.7% |
| 2p92A00 | 3.30.70.1490 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp | 0.63 | 43.0 | 3.49e-01 | 70.4% | 81.1% |
| 5dymA00 | 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 | 42.0 | 3.52e-01 | 70.4% | 84.4% |
| 4oxwA00 | 3.30.1520.10 | Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain | 0.63 | 47.0 | 3.83e-01 | 81.5% | 41.5% |
| 4kyzA00 | 3.30.70.600 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 | 0.63 | 43.0 | 3.02e-01 | 72.2% | 43.7% |
| 2hc5A01 | 3.30.160.170 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › FlaG-like | 0.59 | 40.0 | 3.45e-01 | 75.9% | 40.8% |
| 7dvrA01 | 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 | 0.59 | 40.0 | 2.97e-01 | 70.4% | 53.2% |
| 1jqgA01 | 3.30.70.340 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Metallocarboxypeptidase-like | 0.58 | 41.0 | 3.53e-01 | 74.1% | 68.1% |
| 2zkzC00 | 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 | 33.0 | 2.81e-01 | 79.6% | 34.5% |
| 4lhfA00 | 6.10.200.10 | Special › Helix non-globular › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › Regulatory phage protein Cox | 0.54 | 39.0 | 3.50e-01 | 77.8% | 84.8% |
| 6u9hF02 | 3.30.70.1150 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 | 0.54 | 37.0 | 3.34e-01 | 72.2% | 81.8% |
| 2mlgA00 | 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 | 40.0 | 3.64e-01 | 81.5% | 97.4% |
| 2l48A00 | 3.30.70.2030 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.53 | 41.0 | 3.54e-01 | 83.3% | 92.9% |
| 6l2cB00 | 3.40.47.10 | Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase | 0.53 | 38.0 | 2.33e-01 | 75.9% | 77.9% |
| 2f1fA02 | 3.30.70.1150 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 | 0.53 | 39.0 | 3.51e-01 | 81.5% | 82.1% |
| 4e1pA00 | 3.30.60.230 | Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain | 0.52 | 40.0 | 4.07e-01 | 87.0% | 87.3% |
| 3dfeA00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 37.0 | 3.29e-01 | 75.9% | 81.7% |
| 2zihC00 | 1.10.3630.10 | Mainly Alpha › Orthogonal Bundle › yeast vps74-n-term truncation variant fold › yeast vps74-n-term truncation variant domain like | 0.51 | 39.0 | 2.50e-01 | 83.3% | 22.6% |
| 2qrdE01 | 3.10.580.10 | Alpha Beta › Roll › CBS-domain › CBS-domain | 0.50 | 42.0 | 2.96e-01 | 96.3% | 37.8% |
| 2gukA00 | 3.30.2190.10 | Alpha Beta › 2-Layer Sandwich › PG1857-like › PG1857-like | 0.50 | 34.0 | 2.86e-01 | 74.1% | 56.8% |
ECOD (50)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4995244 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.88 | 58.0 | 4.50e-01 | 75.9% | 33.6% |
| 4926994 | 101.1.2.150 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_45 | 0.87 | 43.0 | 3.35e-01 | 81.5% | 26.0% |
| 5036014 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.86 | 57.0 | 4.62e-01 | 75.9% | 38.9% |
| 3965667 | 109.4.1.520 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HemY_N | 0.82 | 56.0 | 3.25e-01 | 77.8% | 9.4% |
| 3993677 | 823.1.1.0 ↗ | a+b two layers › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW | 0.82 | 60.0 | 5.48e-01 | 77.8% | 60.0% |
| 4945186 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.81 | 39.0 | 2.87e-01 | 75.9% | 20.0% |
| 5077595 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.81 | 41.0 | 3.17e-01 | 81.5% | 24.5% |
| 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 | 0.75 | 52.0 | 3.11e-01 | 79.6% | 11.5% |
| 3482807 | 277.1.1.0 ↗ | a+b two layers › PX domain › PX domain › PX domain | 0.73 | 55.0 | 4.32e-01 | 81.5% | 39.8% |
| 4453177 | 4207.1.2.1 ↗ | alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region › Med7 | 0.73 | 50.0 | 3.77e-01 | 83.3% | 30.4% |
| 5010770 | 2002.3.1.3 ↗ | a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase › Glyco_hydro_57 | 0.73 | 44.0 | 2.54e-01 | 77.8% | 7.5% |
| 3810002 | 101.1.2.111 ↗ | alpha arrays › HTH › HTH › winged helix domain › RQC | 0.73 | 36.0 | 2.83e-01 | 100.0% | 24.5% |
| 4955301 | 5081.1.1.1 ↗ | alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid | 0.73 | 51.0 | 3.19e-01 | 74.1% | 14.0% |
| 5066982 | 5081.1.1.1 ↗ | alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid | 0.72 | 51.0 | 3.85e-01 | 77.8% | 30.7% |
| 3581762 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.72 | 36.0 | 2.81e-01 | 96.3% | 25.7% |
| 3406351 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.71 | 47.0 | 3.66e-01 | 98.1% | 33.6% |
| 3805761 | 614.1.1.0 ↗ | alpha duplicates or obligate multimers › L27 domain › L27 domain › L27 domain | 0.70 | 45.0 | 4.07e-01 | 98.1% | 48.0% |
| 5051882 | 101.1.2.143 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_34 | 0.69 | 47.0 | 3.65e-01 | 70.4% | 65.5% |
| 5063201 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.69 | 47.0 | 3.41e-01 | 70.4% | 81.9% |
| 3657246 | 101.1.2.525 ↗ | alpha arrays › HTH › HTH › winged helix domain › DUF7646 | 0.66 | 55.0 | 4.69e-01 | 100.0% | 92.6% |
| 4950221 | 101.1.2.143 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_34 | 0.65 | 44.0 | 3.46e-01 | 70.4% | 66.7% |
| 5071269 | 101.1.2.48 ↗ | alpha arrays › HTH › HTH › winged helix domain › PadR | 0.63 | 42.0 | 2.85e-01 | 70.4% | 18.6% |
| 4991742 | 101.1.2.48 ↗ | alpha arrays › HTH › HTH › winged helix domain › PadR | 0.62 | 43.0 | 3.22e-01 | 72.2% | 74.6% |
| 3976170 | 101.1.9.26 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › YfeC-like | 0.62 | 42.0 | 3.91e-01 | 72.2% | 97.1% |
| 4329890 | 101.1.2.31 ↗ | alpha arrays › HTH › HTH › winged helix domain › TFIIE_alpha | 0.61 | 43.0 | 3.12e-01 | 74.1% | 48.0% |
| 3466238 | 206.1.1.14 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 | 0.61 | 43.0 | 2.50e-01 | 74.1% | 19.3% |
| 3802871 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.61 | 50.0 | 3.90e-01 | 98.1% | 44.8% |
| 3684015 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.60 | 49.0 | 3.94e-01 | 87.0% | 48.0% |
| 4995788 | 3218.1.1.0 ↗ | a+b duplicates or obligate multimers › small terminase oligomerization domain › small terminase oligomerization domain › small terminase oligomerization domain | 0.60 | 39.0 | 4.01e-01 | 70.4% | 69.8% |
| 3331217 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.59 | 51.0 | 3.50e-01 | 98.1% | 28.9% |
| 3699463 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.58 | 51.0 | 3.40e-01 | 98.1% | 24.7% |
| 3408005 | 2004.1.1.5 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran | 0.58 | 50.0 | 2.83e-01 | 96.3% | 88.3% |
| 3991544 | 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 | 49.0 | 3.94e-01 | 90.7% | 51.0% |
| 3220364 | 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 | 0.58 | 43.0 | 2.95e-01 | 100.0% | 22.0% |
| 3888859 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.57 | 44.0 | 3.73e-01 | 88.9% | 84.0% |
| 3921728 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.57 | 50.0 | 3.93e-01 | 98.1% | 46.1% |
| 3920672 | 206.1.1.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase | 0.57 | 50.0 | 4.20e-01 | 98.1% | 61.1% |
| 3750883 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.57 | 50.0 | 3.48e-01 | 98.1% | 31.4% |
| 3236563 | 3567.1.1.0 ↗ | a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer | 0.56 | 49.0 | 3.77e-01 | 100.0% | 44.0% |
| 3349668 | 208.1.1.5 ↗ | beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › UDPGP | 0.55 | 45.0 | 3.11e-01 | 90.7% | 54.4% |
| 4457710 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.55 | 50.0 | 3.79e-01 | 100.0% | 61.7% |
| 5079277 | 1.1.3.2 ↗ | beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin | 0.54 | 35.0 | 3.50e-01 | 74.1% | 62.1% |
| 2526356 | 2008.1.1.48 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_NgoBV | 0.54 | 37.0 | 2.45e-01 | 72.2% | 26.3% |
| 4981961 | 101.1.2.819 ↗ | alpha arrays › HTH › HTH › winged helix domain › PF27231 | 0.53 | 37.0 | 2.76e-01 | 75.9% | 28.7% |
| 3628907 | 101.1.2.394 ↗ | alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1 | 0.52 | 45.0 | 2.45e-01 | 100.0% | 21.8% |
| 3898373 | 5001.1.1.3 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_2 | 0.52 | 46.0 | 2.91e-01 | 98.1% | 97.1% |
| 4217761 | 304.14.1.1 ↗ | a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) › SPOR | 0.52 | 37.0 | 3.30e-01 | 75.9% | 84.8% |
| 4946426 | 3241.1.1.0 ↗ | alpha arrays › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 | 0.52 | 45.0 | 2.98e-01 | 96.3% | 80.5% |
| 5001284 | 101.1.2.48 ↗ | alpha arrays › HTH › HTH › winged helix domain › PadR | 0.51 | 44.0 | 3.12e-01 | 94.4% | 32.5% |
| 3738691 | 101.1.2.271 ↗ | alpha arrays › HTH › HTH › winged helix domain › B-block_TFIIIC | 0.50 | 37.0 | 3.31e-01 | 81.5% | 95.0% |
D2
high
residues 154-290
Domain cluster:
rep: P1__YP_006908980__Rose_yellow_mosaic_virus__1048434__D303-423
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01577.23 best | Peptidase_S30 | 122.6 | 3.00e-35 | 99.3% | 55.1% |
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3991383 | 330.1.1.1 ↗ | a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm | 0.53 | 26.0 | 3.08e-01 | 79.6% | 65.6% |
| 3519579 | 295.1.1.20 ↗ | a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › Intu_longin_3 | 0.52 | 26.0 | 3.19e-01 | 78.8% | 76.2% |