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leader_protease_2

Euk-Vir

Strawberry_chlorotic_fleck-associated_virus

leader_protease_2__YP_762677__Strawberry_chlorotic_fleck-associated_virus__399314

Identity

Accession:
YP_762677 ↗
Protein ID:
leader_protease_2
Kingdom:
euk

Quality

73.2 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Martellivirales› Closteroviridae› Closterovirus› Strawberry_chlorotic_fleck-associated_virus

TaxID: 399314

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 23-110
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3s6pA03 2.60.270.70 Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › 0.66 45.0 3.85e-01 70.5% 84.5%
4hntA04 3.10.600.10 Alpha Beta › Roll › pyruvate carboxylase f1077a mutant fold › pyruvate carboxylase f1077a mutant domain 0.65 46.0 4.40e-01 72.7% 95.0%
1fr3A00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.65 31.0 3.49e-01 75.0% 56.7%
1xkiA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 44.0 3.87e-01 71.6% 65.6%
1lfoA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 44.0 3.91e-01 73.9% 84.3%
2nugB02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 35.0 3.87e-01 83.0% 70.4%
1ohfA03 2.60.270.70 Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › 0.61 42.0 3.61e-01 71.6% 83.7%
2o62A02 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 42.0 3.63e-01 71.6% 86.1%
1p6pA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 43.0 3.78e-01 72.7% 84.0%
3c4sA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.60 33.0 4.02e-01 86.4% 84.2%
5w7zA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.60 37.0 3.40e-01 83.0% 48.7%
4ghbA00 2.40.160.190 Mainly Beta › Beta Barrel › Porin › 0.59 45.0 3.29e-01 83.0% 44.7%
4e5xG00 2.60.40.3530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 42.0 4.05e-01 73.9% 75.8%
3uoaB02 2.60.40.3360 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 43.0 3.71e-01 77.3% 87.5%
3f1jA00 2.70.20.40 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Borna disease virus, matrix protein 0.58 43.0 3.65e-01 77.3% 70.0%
1oh1A00 2.40.310.10 Mainly Beta › Beta Barrel › Staphostatins › beta-Barrel protease inhibitors 0.58 40.0 3.73e-01 71.6% 98.2%
1gyvA00 2.60.40.1230 Mainly Beta › Sandwich › Immunoglobulin-like › Gamma-adaptin ear (GAE) domain 0.56 39.0 3.58e-01 72.7% 87.5%
2eqsA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 34.0 3.45e-01 84.1% 60.7%
2qm4A01 2.170.210.10 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › DNA double-strand break repair and VJ recombination XRCC4, N-terminal 0.54 39.0 3.37e-01 76.1% 97.9%
1nycA00 2.40.310.10 Mainly Beta › Beta Barrel › Staphostatins › beta-Barrel protease inhibitors 0.54 41.0 3.85e-01 81.8% 91.0%
3besR01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 39.0 4.05e-01 76.1% 98.8%
2m7oA00 3.10.450.400 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Uncharacterised protein PF15513, DUF4651 0.54 34.0 3.81e-01 86.4% 81.4%
3rc2A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 40.0 3.12e-01 79.5% 71.6%
4mveA00 2.40.128.580 Mainly Beta › Beta Barrel › Lipocalin › GXWXG domain 0.54 42.0 3.59e-01 85.2% 79.6%
4eeeA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 37.0 3.45e-01 73.9% 91.3%
5kolD00 3.90.950.20 Alpha Beta › Alpha-Beta Complex › Maf protein › CinA-like 0.52 39.0 3.14e-01 78.4% 90.1%
6e5bN00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.52 41.0 3.18e-01 85.2% 85.4%
1t6lA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.52 42.0 3.11e-01 89.8% 48.6%
1p32B00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.52 40.0 3.22e-01 88.6% 42.1%
1qmnA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.52 39.0 3.35e-01 79.5% 100.0%
3pieC05 2.170.260.40 Mainly Beta › Beta Complex › paz domain › 0.52 37.0 2.98e-01 75.0% 62.3%
1aq3A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.51 39.0 3.40e-01 79.5% 72.1%
1p9rA01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 41.0 3.83e-01 90.9% 70.3%
4rbnA01 3.10.450.330 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 40.0 3.54e-01 84.1% 83.7%
1e8oD00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.51 40.0 4.26e-01 85.2% 100.0%
4l5rC02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 33.0 3.33e-01 85.2% 65.2%
3eqeA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 39.0 3.33e-01 85.2% 85.9%
3ewaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 44.0 3.23e-01 98.9% 70.3%
7byjA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 34.0 3.37e-01 80.7% 65.3%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.50 34.0 3.22e-01 70.5% 73.4%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4954529 3335.1.1.0 ↗ beta barrels › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B 0.69 43.0 5.06e-01 77.3% 91.7%
3979195 274.1.1.35 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › DUF2509 0.68 48.0 4.31e-01 77.3% 52.0%
3943357 274.1.1.35 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › DUF2509 0.65 45.0 4.61e-01 77.3% 75.3%
3933100 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 34.0 3.73e-01 83.0% 65.7%
4856205 1032.1.1.2 ↗ alpha arrays › Toxin A (TcdA) helical domain › Toxin A (TcdA) helical domain › Toxin A (TcdA) helical domain › TcdA_TcdB_pore, PF30720 0.62 46.0 3.49e-01 79.5% 34.9%
3408937 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.61 35.0 3.68e-01 86.4% 61.3%
852 9.1.1.29 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › BFA1_C 0.61 42.0 3.63e-01 71.6% 86.1%
185765 5084.5.1.13 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › DUF4595 0.59 45.0 3.29e-01 83.0% 44.7%
3925738 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 34.0 3.11e-01 70.5% 45.5%
2323841 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 46.0 3.07e-01 86.4% 94.8%
4033339 520.1.1.2 ↗ beta sandwiches › gp9 N-terminal domain-like › gp9 N-terminal domain-related › gp9 N-terminal domain-related › PF27308 0.58 45.0 4.64e-01 84.1% 92.9%
3403839 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.57 33.0 3.30e-01 83.0% 55.6%
3946213 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.56 43.0 3.60e-01 80.7% 61.3%
5033931 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 43.0 2.90e-01 83.0% 95.4%
3721374 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.56 40.0 3.84e-01 75.0% 100.0%
3598260 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.55 38.0 3.36e-01 71.6% 49.6%
5039153 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 47.0 3.05e-01 95.5% 58.8%
4011254 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.54 39.0 2.71e-01 76.1% 91.0%
4030063 243.4.1.0 ↗ a+b two layers › Cystatin-like › DsbC/DsbG N-terminal domain-like › DsbC/DsbG N-terminal domain-like 0.53 37.0 2.80e-01 71.6% 96.1%
3789625 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.53 42.0 3.63e-01 84.1% 93.3%
4276439 2004.1.1.429 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_15 0.53 39.0 2.62e-01 78.4% 25.4%
3690077 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.53 39.0 2.78e-01 77.3% 91.7%
1924009 227.1.1.10 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_PAP 0.53 43.0 3.74e-01 87.5% 90.2%
3648118 3270.1.1.0 ↗ a+b two layers › a+b domain in heme oxygenase › a+b domain in heme oxygenase › a+b domain in heme oxygenase 0.53 37.0 3.72e-01 94.3% 71.1%
3816322 5.1.3.118 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.53 41.0 2.85e-01 85.2% 94.0%
3266786 11.1.1.820 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Beta-sand_ComC_2nd 0.53 38.0 3.82e-01 75.0% 90.0%
4927832 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.53 43.0 3.98e-01 87.5% 79.1%
3387861 5090.1.1.0 ↗ beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains 0.53 41.0 3.79e-01 84.1% 82.6%
5023031 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.53 43.0 3.82e-01 87.5% 93.6%
3175837 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 41.0 3.40e-01 83.0% 80.7%
3549045 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.52 36.0 3.38e-01 71.6% 66.4%
3719326 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 41.0 2.71e-01 87.5% 45.1%
3346613 3270.1.1.1 ↗ a+b two layers › a+b domain in heme oxygenase › a+b domain in heme oxygenase › a+b domain in heme oxygenase › DUF2470 0.51 37.0 3.70e-01 94.3% 73.3%
3853654 5.1.3.6 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1 0.51 44.0 3.01e-01 95.5% 76.5%
3497350 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.51 43.0 3.44e-01 96.6% 74.7%
3988706 243.3.1.13 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › DUF5590 0.50 33.0 3.61e-01 86.4% 84.3%
3342083 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.50 43.0 2.97e-01 93.2% 32.2%
3252223 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.50 44.0 2.95e-01 98.9% 52.8%
3205174 5.1.4.245 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF7099 0.50 43.0 2.80e-01 93.2% 28.0%
D2 high residues 127-210
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05533.19 best Peptidase_C42 41.4 1.70e-10 98.8% 86.4%
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rnvA00 3.90.70.150 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Helper component proteinase 0.80 73.0 6.38e-01 100.0% 92.7%
4uw9A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.60 46.0 4.72e-01 83.3% 92.8%
1wlzA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.56 43.0 4.42e-01 91.7% 85.0%
3x3bA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 39.0 2.86e-01 86.9% 52.8%
3brcA02 3.40.50.10150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › B12-dependent dehydatase associated subunit 0.50 39.0 3.50e-01 84.5% 90.0%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
185514 219.1.1.7 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C6 0.80 73.0 6.38e-01 100.0% 92.7%
3935053 221.1.1.52 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Ubiquitin_2 0.60 44.0 4.41e-01 100.0% 76.5%
3741140 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.60 43.0 4.48e-01 100.0% 85.3%
3639581 283.1.1.1 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase › Peptidase_M24 0.54 41.0 3.95e-01 85.7% 71.0%
3401548 221.1.1.69 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › SNX17-27-31_F1_FERM 0.53 42.0 4.01e-01 100.0% 73.0%
4072767 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.51 45.0 4.09e-01 100.0% 77.4%