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coat_protein

Euk-Vir

Lettuce_chordovirus_1

coat_protein__YP_009552713__Lettuce_chordovirus_1__2200955

Identity

Accession:
YP_009552713 ↗
Protein ID:
coat_protein
Kingdom:
euk

Quality

70.8 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Tymovirales› Betaflexiviridae› Chordovirus› Lettuce_chordovirus_1

TaxID: 2200955

Cluster

View cluster (22 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 36-180
PDB
Domain cluster: rep: ORF3__YP_009103998__Carrot_Ch_virus_2__1425362__D3-114
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05892.18 best Tricho_coat 101.6 6.10e-29 95.2% 62.4%
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1jyoE00 4.10.1330.10 Few Secondary Structures › Irregular › non globular Virulence effector SptP fold › non globular Virulence effector SptP domain 0.59 22.0 2.63e-01 93.1% 45.1%
2od4B01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 29.0 3.58e-01 93.1% 80.9%
2cc6A00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.55 20.0 2.86e-01 90.3% 68.8%
1sc6A03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.54 26.0 3.35e-01 89.0% 78.0%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 26.0 3.02e-01 97.2% 65.1%
2b4vA03 3.30.70.1970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 27.0 3.12e-01 92.4% 68.7%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4876719 3397.1.1.1 ↗ a+b complex topology › Tic22 › Tic22 › Tic22 › Tic22 0.67 17.0 2.63e-01 91.7% 49.2%
2764890 4322.1.1.1 ↗ a+b complex topology › Flu NP-like › Flu NP-like › Flu NP-like › Flu_NP 0.63 50.0 5.22e-01 100.0% 92.5%
5039113 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.61 25.0 3.66e-01 93.8% 84.6%
3239600 327.11.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) 0.59 30.0 4.17e-01 88.3% 100.0%
1117759 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.59 53.0 4.38e-01 97.9% 82.2%
4002369 304.47.1.0 ↗ a+b two layers › Alpha-beta plaits › SEA domain › SEA domain 0.59 34.0 4.25e-01 100.0% 93.3%
3678667 304.31.1.1 ↗ a+b two layers › Alpha-beta plaits › HMG-CoA reductase › NAD-binding domain of HMG-CoA reductase › HMG-CoA_red 0.58 25.0 3.19e-01 97.2% 65.9%
4997100 3646.1.1.1 ↗ alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › CbiQ 0.58 31.0 2.51e-01 86.2% 25.8%
3474254 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.57 34.0 3.59e-01 98.6% 63.0%
5021279 304.8.1.12 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_8 0.57 24.0 3.33e-01 90.3% 77.3%
4517239 327.4.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › YhbC-like, N-terminal domain › YhbC-like, N-terminal domain › RimP_N 0.56 37.0 4.46e-01 95.9% 100.0%
None — 0.55 34.0 2.66e-01 97.9% 28.3%
5040551 304.8.1.12 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_8 0.55 25.0 3.42e-01 91.0% 89.2%
5049140 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.55 27.0 3.54e-01 94.5% 88.0%
4183868 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.55 29.0 3.76e-01 93.8% 92.4%
4931004 304.8.1.12 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_8 0.54 24.0 3.39e-01 91.0% 89.2%
4940222 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.54 24.0 3.29e-01 91.7% 86.2%
3331217 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.53 25.0 2.32e-01 95.9% 33.7%
3330406 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.53 22.0 3.15e-01 93.8% 86.7%
5023619 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.53 25.0 3.30e-01 89.0% 84.0%
4013312 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.52 41.0 3.34e-01 82.8% 76.6%
3599334 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.52 27.0 3.12e-01 92.4% 68.0%
184476 304.9.1.32 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › Ret2_MD 0.52 27.0 3.19e-01 92.4% 73.1%
3540649 11.1.1.789 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › KIAA1549 0.51 35.0 3.78e-01 99.3% 83.3%
4954714 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.51 38.0 3.56e-01 88.3% 62.8%
4292769 304.4.1.47 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › SchA_CurD 0.51 30.0 3.33e-01 99.3% 73.6%
D2 high residues 189-243
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05892.18 best Tricho_coat 68.1 1.20e-18 100.0% 26.7%
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3w0fA02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.79 55.0 4.02e-01 72.7% 30.9%
4uhiA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.71 62.0 3.68e-01 100.0% 45.8%
2fekA00 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.68 48.0 3.50e-01 98.2% 27.9%
1j3wC00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.65 56.0 4.22e-01 96.4% 91.7%
3f41A01 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.64 56.0 3.55e-01 100.0% 65.9%
1u9lB00 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.62 50.0 4.72e-01 92.7% 100.0%
2b1eA03 1.10.357.60 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.60 52.0 3.70e-01 100.0% 76.2%
1hdoA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.59 50.0 3.42e-01 96.4% 63.9%
2p3yA02 1.10.3360.10 Mainly Alpha › Orthogonal Bundle › VPA0735-like fold › VPA0735-like domain 0.58 50.0 4.00e-01 96.4% 98.1%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3733386 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.70 63.0 4.31e-01 100.0% 86.3%
3885624 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.65 50.0 3.88e-01 83.6% 65.0%
4446401 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.61 54.0 3.97e-01 100.0% 55.2%
3741007 109.4.1.152 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RPN7 0.61 51.0 3.22e-01 96.4% 94.8%
3730442 5050.1.1.50 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › DUF1275 0.60 53.0 3.46e-01 100.0% 55.6%
3675692 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 46.0 3.08e-01 83.6% 53.2%
3334305 219.1.1.16 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C48 0.54 42.0 2.79e-01 96.4% 18.8%
3873232 110.1.1.0 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain 0.51 37.0 3.29e-01 76.4% 82.5%