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cysteine-like_protease_-Cyst-Pro-

Euk-Vir

Grapevine_Bulgarian_latent_virus

cysteine-like_protease_-Cyst-Pro-__YP_004429253__Grapevine_Bulgarian_latent_virus__748667

Identity

Accession:
YP_004429253 ↗
Protein ID:
cysteine-like_protease_-Cyst-Pro-
Kingdom:
euk

Quality

72.1 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Pisoniviricetes› Picornavirales› Secoviridae› Nepovirus› Grapevine_Bulgarian_latent_virus

TaxID: 748667

Cluster

Singleton — not in a non-trivial cluster

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
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4lduA03 2.30.30.1040 Mainly Beta › Roll › SH3 type barrels. › 0.68 57.0 5.34e-01 94.4% 85.3%
4ic5A02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.68 58.0 4.75e-01 98.1% 54.8%
1gcbA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.65 43.0 2.58e-01 90.7% 9.3%
2asfA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 52.0 4.12e-01 100.0% 46.4%
3nvqA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 49.0 2.95e-01 90.7% 38.3%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.61 50.0 4.14e-01 90.7% 77.1%
1nqzA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.61 49.0 3.51e-01 92.6% 81.9%
4qqgG00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.60 47.0 4.38e-01 92.6% 76.4%
3tw8A01 3.30.450.200 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin module 0.59 41.0 3.09e-01 90.7% 28.3%
4jdeA01 2.60.40.3820 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 41.0 3.18e-01 98.1% 29.9%
1olzA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 44.0 2.65e-01 90.7% 40.6%
1nbwA04 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 48.0 3.65e-01 96.3% 69.7%
2zgyA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 45.0 3.25e-01 92.6% 48.3%
7k7yG02 1.20.1120.10 Mainly Alpha › Up-down Bundle › "Clostridium botulinum neurotoxin B, ""coiled-coil"" domain" › "Clostridium botulinum neurotoxin b, ""coiled-coil"" domain" 0.56 44.0 2.68e-01 87.0% 25.9%
1jkmA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.56 44.0 2.71e-01 87.0% 26.8%
3cetB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 41.0 3.34e-01 96.3% 40.9%
7trwA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.55 47.0 3.88e-01 98.1% 69.3%
5xc5A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 44.0 3.29e-01 98.1% 83.2%
2r6fA04 1.10.8.280 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › ABC transporter ATPase domain-like 0.54 38.0 3.05e-01 87.0% 35.6%
3g9kF01 3.60.20.40 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Gamma-glutamyltranspeptidase, small (S) subunit 0.53 37.0 2.76e-01 98.1% 25.2%
2byvE05 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 46.0 4.09e-01 100.0% 75.9%
1b69A00 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.53 46.0 4.23e-01 96.3% 92.8%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 41.0 3.44e-01 88.9% 54.9%
3agjF01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.53 40.0 3.29e-01 92.6% 74.8%
4chjA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 42.0 3.38e-01 98.1% 64.5%
1gg1A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.51 35.0 2.21e-01 72.2% 12.1%
2jrrA01 2.60.260.40 Mainly Beta › Sandwich › HSP40/DNAj peptide-binding domain › q5lls5 like domains 0.51 34.0 3.45e-01 98.1% 71.7%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3816594 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.70 60.0 3.94e-01 98.1% 26.7%
3800501 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.63 44.0 3.31e-01 75.9% 37.9%
3717300 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.63 51.0 3.02e-01 92.6% 35.3%
3938317 389.1.1.0 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin 0.62 33.0 3.74e-01 74.1% 67.5%
3691938 219.1.1.17 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C1_2 0.61 42.0 2.49e-01 92.6% 8.5%
3276452 220.4.1.6 ↗ beta barrels › PH domain-like › second barrel domain in viral glycoproteins › second barrel domain in viral glycoproteins › Peptidase_M8 0.61 50.0 2.97e-01 94.4% 24.8%
3614175 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.61 42.0 3.48e-01 88.9% 37.3%
3614862 4015.1.1.1 ↗ alpha complex topology › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › Sec1 0.59 50.0 3.32e-01 96.3% 42.6%
3676540 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.59 38.0 3.11e-01 77.8% 36.0%
3351840 284.1.3.2 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › OSR1_C 0.59 47.0 4.38e-01 94.4% 71.0%
3962972 4052.1.1.0 ↗ beta complex topology › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like 0.59 45.0 4.00e-01 88.9% 67.1%
3641356 221.1.1.44 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Rad60-SLD 0.59 43.0 3.94e-01 92.6% 58.7%
5027779 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.59 40.0 3.28e-01 74.1% 66.4%
3575976 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.58 42.0 3.13e-01 77.8% 37.2%
4624270 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.58 40.0 2.64e-01 72.2% 16.8%
3594429 4.6.1.0 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain 0.58 44.0 3.80e-01 88.9% 60.6%
3273955 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.57 41.0 3.02e-01 77.8% 51.0%
3718125 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.57 37.0 2.38e-01 85.2% 13.1%
4027366 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 39.0 2.40e-01 72.2% 19.5%
3409778 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.56 40.0 3.16e-01 79.6% 41.5%
4932366 375.1.2.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Desulforedoxin 0.56 37.0 4.06e-01 81.5% 92.5%
3218156 389.1.1.145 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › PF29138 0.56 34.0 3.65e-01 77.8% 73.3%
4593266 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.53 39.0 3.52e-01 77.8% 73.3%
3939157 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 42.0 2.38e-01 90.7% 13.2%
3529264 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.53 37.0 3.64e-01 94.4% 70.0%
4583667 327.16.1.3 ↗ 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 › Secretin_N 0.52 42.0 3.54e-01 88.9% 100.0%
5053740 12.6.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related 0.52 42.0 3.38e-01 90.7% 75.2%
3839607 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.51 41.0 3.29e-01 92.6% 76.3%
3945241 2004.1.1.262 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF2813 0.50 36.0 2.59e-01 79.6% 25.6%
4002055 63.1.1.6 ↗ beta barrels › Mannose 6-phosphate receptor domain › Mannose 6-phosphate receptor domain › Mannose 6-phosphate receptor domain › MRH_ELAPOR1_9th 0.50 41.0 3.45e-01 94.4% 69.4%
D2 medium residues 55-193
PDB
Domain cluster: rep: putative_3C_peptidase__YP_009553718__tremovirus_B1__2058161__D98-201
D3 medium residues 194-221
PDB