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P0

Euk-Vir

Luffa_aphid-borne_yellows_virus

P0__YP_009162332__Luffa_aphid-borne_yellows_virus__1462682

Identity

Accession:
YP_009162332 ↗
Protein ID:
P0
Kingdom:
euk

Quality

75.3 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Pisoniviricetes› Sobelivirales› Solemoviridae› Polerovirus› Luffa_aphid-borne_yellows_virus

TaxID: 1462682

Cluster

View cluster (15 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 medium residues 1-54_56-81_169-185
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1iyrA00 1.10.1490.10 Mainly Alpha › Orthogonal Bundle › Dna Fragmentation Factor Alpha Subunit; Chain: A; › C-terminal domain of DFF45/ICAD (DFF-C domain) 0.57 35.0 3.80e-01 78.4% 73.5%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.56 41.0 4.19e-01 78.4% 82.5%
1a22A00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.54 40.0 3.36e-01 78.4% 89.4%
1g2rA00 3.30.1230.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › YlxR-like 0.54 39.0 4.00e-01 77.3% 80.9%
1cukA02 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.53 38.0 4.15e-01 100.0% 94.7%
1ug7A00 1.20.120.360 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Axin interactor, dorsalization-associated protein, N-terminal domain 0.53 39.0 3.56e-01 77.3% 78.1%
2fbaA00 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.52 44.0 2.88e-01 96.9% 34.6%
2my5A00 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.52 37.0 3.82e-01 73.2% 79.8%
1evsA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.52 38.0 3.29e-01 78.4% 86.5%
1tj7A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.52 37.0 3.64e-01 74.2% 84.8%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 38.0 3.26e-01 78.4% 81.0%
1yuzB01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.51 35.0 3.17e-01 70.1% 83.3%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.50 37.0 3.24e-01 77.3% 93.4%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3572246 601.7.1.37 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › Las1 0.55 44.0 3.83e-01 86.6% 76.7%
3740245 4156.1.1.4 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C 0.51 38.0 2.92e-01 77.3% 98.6%
D2 medium residues 84-110_186-238
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nkyA03 1.20.960.20 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › 0.61 42.0 4.36e-01 88.7% 78.1%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3494025 109.4.1.14 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MyTH4 0.53 45.0 3.34e-01 100.0% 89.1%
D3 medium residues 111-168
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2e62A01 6.10.140.420 Special › Helix non-globular › Helix Hairpins › 0.74 56.0 5.84e-01 89.7% 94.2%
4ysxC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.72 60.0 4.47e-01 94.8% 47.7%
3uo2B02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.69 50.0 4.33e-01 75.9% 52.4%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.68 55.0 5.22e-01 87.9% 79.4%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.68 49.0 4.00e-01 75.9% 42.7%
1luwA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.68 46.0 4.50e-01 77.6% 64.1%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.68 49.0 4.71e-01 77.6% 75.0%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.67 54.0 4.95e-01 86.2% 71.6%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 49.0 4.61e-01 75.9% 68.1%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.67 47.0 4.23e-01 81.0% 53.2%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.66 48.0 4.47e-01 81.0% 62.0%
1wfdA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.66 43.0 3.69e-01 72.4% 41.9%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 44.0 4.15e-01 75.9% 56.3%
2vk9A03 1.10.3730.30 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › 0.66 54.0 4.64e-01 94.8% 58.2%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.66 48.0 4.48e-01 75.9% 66.2%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.65 46.0 4.45e-01 75.9% 67.2%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 46.0 4.12e-01 75.9% 55.1%
1gvnA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.65 51.0 4.51e-01 87.9% 78.2%
3hwcA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.64 55.0 3.75e-01 96.6% 73.3%
4u7iA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.64 49.0 4.15e-01 81.0% 51.6%
3ilxA02 1.10.287.2170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 46.0 5.16e-01 89.7% 100.0%
3lgdA00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.64 51.0 3.01e-01 89.7% 95.0%
3r2qA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.64 46.0 3.68e-01 75.9% 39.8%
2rklF00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.64 46.0 4.88e-01 77.6% 88.5%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.63 44.0 4.28e-01 75.9% 70.6%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.63 50.0 3.55e-01 84.5% 33.1%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.62 51.0 4.51e-01 89.7% 98.8%
1aueB00 1.20.120.150 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › FKBP12-rapamycin binding domain 0.62 43.0 3.69e-01 81.0% 44.7%
1b06A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.62 45.0 4.31e-01 77.6% 65.7%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.62 44.0 4.02e-01 81.0% 57.3%
3hhcC00 1.20.1250.60 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interferon lambda 0.61 51.0 3.80e-01 91.4% 61.6%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.61 52.0 4.07e-01 94.8% 52.4%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.61 46.0 3.42e-01 81.0% 33.3%
2nsaA00 1.10.3120.10 Mainly Alpha › Orthogonal Bundle › Trigger factor, domain 2 › Trigger factor, C-terminal domain 0.61 48.0 3.57e-01 91.4% 33.5%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.61 46.0 4.01e-01 82.8% 54.0%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.61 51.0 3.75e-01 93.1% 36.1%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.60 47.0 5.05e-01 89.7% 96.1%
1bucA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.60 43.0 3.46e-01 79.3% 37.4%
2wgmA01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.60 45.0 4.09e-01 84.5% 59.8%
4cmyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.59 50.0 3.53e-01 89.7% 37.4%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.59 48.0 3.60e-01 94.8% 38.5%
4ar9A02 1.10.390.20 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › 0.58 46.0 3.53e-01 87.9% 66.9%
2e9xA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 47.0 3.56e-01 87.9% 39.1%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 45.0 4.10e-01 84.5% 62.8%
2hxoA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.57 46.0 3.61e-01 98.3% 67.4%
2kg7B00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.56 45.0 3.85e-01 89.7% 56.7%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3273862 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.70 47.0 3.96e-01 70.7% 77.9%
4172303 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.70 51.0 3.91e-01 77.6% 37.6%
3738950 604.38.1.5 ↗ alpha bundles › Spectrin repeat-like › Legionella effector SdeA 3-helical bundle › Legionella effector SdeA 3-helical bundle › TMD_POM152 0.69 55.0 4.77e-01 89.7% 54.7%
4548859 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.69 50.0 4.03e-01 75.9% 72.4%
4109908 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.69 51.0 4.52e-01 87.9% 54.1%
3242683 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.69 54.0 4.62e-01 84.5% 81.1%
3336677 605.1.1.132 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 0.68 52.0 4.77e-01 81.0% 100.0%
4515894 5043.1.1.0 ↗ extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like 0.68 56.0 5.74e-01 91.4% 98.2%
4287749 150.5.1.110 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › PRESAN 0.68 57.0 4.96e-01 94.8% 75.6%
3504889 604.22.1.1 ↗ alpha bundles › Spectrin repeat-like › tubulin binding cofactor C N-terminal domain › tubulin binding cofactor C N-terminal domain › TBCC_N 0.68 50.0 4.36e-01 77.6% 52.9%
3589830 5043.2.1.8 ↗ extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain › DUF5592 0.68 57.0 5.42e-01 96.6% 94.3%
4365052 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.68 55.0 4.62e-01 87.9% 56.8%
5016327 605.1.1.2 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim 0.67 46.0 4.28e-01 75.9% 58.6%
4943532 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 0.66 48.0 4.47e-01 75.9% 88.6%
3570117 375.6.1.2 ↗ few secondary structure elements › Rubredoxin-like › FlhC-like › FlhC-like › PF31275 0.66 51.0 5.06e-01 84.5% 86.7%
4107823 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.66 56.0 4.64e-01 93.1% 86.0%
4949979 605.1.1.2 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim 0.65 47.0 4.51e-01 77.6% 66.2%
4798159 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.65 47.0 4.32e-01 82.8% 57.9%
3560750 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.65 50.0 4.71e-01 82.8% 94.3%
5033222 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.64 50.0 4.03e-01 82.8% 45.7%
4297580 3625.1.1.0 ↗ alpha bundles › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain 0.63 45.0 4.31e-01 81.0% 64.3%
5040119 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 0.62 47.0 4.68e-01 81.0% 78.3%
3212799 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.62 51.0 4.50e-01 89.7% 83.5%
3735658 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.62 55.0 4.40e-01 100.0% 68.7%
4993041 150.1.1.3 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.62 47.0 4.19e-01 81.0% 58.7%
3301847 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.62 48.0 3.98e-01 82.8% 52.0%
5038830 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.62 48.0 3.94e-01 82.8% 48.0%
3416035 104.1.1.0 ↗ alpha duplicates or obligate multimers › TFIIA, alpha-helical domain › TFIIA, alpha-helical domain › TFIIA, alpha-helical domain 0.61 43.0 4.39e-01 74.1% 78.2%
1668933 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.61 52.0 4.44e-01 96.6% 58.2%
4937556 5041.1.1.0 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.60 48.0 4.79e-01 93.1% 95.0%
5044800 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.58 44.0 3.96e-01 81.0% 58.7%
3410968 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.58 49.0 4.63e-01 93.1% 98.6%
5041271 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.58 45.0 4.12e-01 82.8% 64.0%