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leader_protease_1

Euk-Vir

Strawberry_chlorotic_fleck-associated_virus

leader_protease_1__YP_762676__Strawberry_chlorotic_fleck-associated_virus__399314

Identity

Accession:
YP_762676 ↗
Protein ID:
leader_protease_1
Kingdom:
euk

Quality

50.6 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

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 257-341
PDB
Domain cluster: rep: leader_protease_2__YP_762677__Strawberry_chlorotic_fleck-associated_virus__399314__D23-110
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1n2bB02 3.30.1300.10 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › Pantoate-beta-alanine ligase, C-terminal domain 0.69 51.0 4.84e-01 78.8% 78.8%
3s6pA03 2.60.270.70 Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › 0.66 45.0 3.78e-01 70.6% 83.8%
3zleA03 2.10.70.70 Mainly Beta › Ribbon › Complement Module; domain 1 › 0.65 29.0 4.05e-01 72.9% 89.7%
2giaA00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.64 45.0 3.73e-01 74.1% 60.4%
6i8xA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 44.0 3.62e-01 71.8% 79.2%
1o8vA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 45.0 3.84e-01 74.1% 83.5%
1lfoA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.62 44.0 3.82e-01 72.9% 84.3%
1dxkA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.62 45.0 3.36e-01 76.5% 61.1%
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 0.60 31.0 3.40e-01 78.8% 61.2%
3c4sA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.59 32.0 3.88e-01 83.5% 80.7%
3uoaB02 2.60.40.3360 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 41.0 3.53e-01 72.9% 83.1%
4e5xG00 2.60.40.3530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 43.0 4.11e-01 77.6% 78.8%
3ewaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 42.0 3.06e-01 80.0% 64.7%
3mnmA00 2.60.40.1230 Mainly Beta › Sandwich › Immunoglobulin-like › Gamma-adaptin ear (GAE) domain 0.56 39.0 3.59e-01 72.9% 91.1%
2q7nA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 40.0 3.78e-01 74.1% 95.0%
2gy5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 39.0 3.75e-01 74.1% 98.0%
1gyvA00 2.60.40.1230 Mainly Beta › Sandwich › Immunoglobulin-like › Gamma-adaptin ear (GAE) domain 0.55 40.0 3.63e-01 77.6% 90.8%
2essA02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.55 43.0 4.13e-01 85.9% 90.9%
1t6lA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.54 44.0 3.20e-01 89.4% 47.0%
4eeeA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 37.0 3.43e-01 72.9% 90.4%
3weoA01 2.60.40.1760 Mainly Beta › Sandwich › Immunoglobulin-like › glycosyl hydrolase (family 31) 0.54 42.0 3.04e-01 85.9% 46.3%
5uv6A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 37.0 3.69e-01 71.8% 100.0%
3besR01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 38.0 3.89e-01 75.3% 97.6%
1h3gA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 37.0 3.74e-01 75.3% 100.0%
2fwvA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 38.0 2.99e-01 76.5% 70.5%
1iucA00 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.52 46.0 3.14e-01 100.0% 84.3%
1dr9A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 36.0 3.54e-01 74.1% 97.9%
2r5vA01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 37.0 3.06e-01 75.3% 94.0%
3p91A00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.51 38.0 2.84e-01 82.4% 44.1%
3ulbA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 38.0 3.90e-01 95.3% 83.1%
1kyfA01 2.60.40.1230 Mainly Beta › Sandwich › Immunoglobulin-like › Gamma-adaptin ear (GAE) domain 0.51 43.0 3.67e-01 91.8% 96.3%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 38.0 3.34e-01 85.9% 54.8%
1lshB00 2.20.90.10 Mainly Beta › Single Sheet › Lipovitellin-phosvitin complex; beta-sheet shell regions › Vitellinogen, beta-sheet shell domain 0.50 41.0 3.24e-01 88.2% 64.4%
2e6zA00 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.50 27.0 3.16e-01 83.5% 74.6%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3730653 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.73 37.0 4.13e-01 75.3% 61.4%
3633647 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.67 38.0 4.36e-01 74.1% 73.8%
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 0.67 44.0 5.06e-01 70.6% 95.0%
3514660 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.64 36.0 3.54e-01 71.8% 53.3%
3479661 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 36.0 3.24e-01 70.6% 43.6%
3987799 4221.1.1.1 ↗ a+b two layers › YkuJ-like › YkuJ-like › YkuJ-like › DUF1797 0.63 42.0 4.57e-01 72.9% 82.9%
4033743 243.19.1.0 ↗ a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.63 51.0 5.18e-01 87.1% 91.8%
3993651 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.63 45.0 3.16e-01 75.3% 87.8%
4614038 9.1.1.1 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin 0.62 44.0 3.76e-01 74.1% 85.7%
3986751 3197.1.1.0 ↗ a+b two layers › N-terminal domain of effector protein PipB2 › N-terminal domain of effector protein PipB2 › N-terminal domain of effector protein PipB2 0.60 47.0 4.40e-01 87.1% 100.0%
3740379 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.60 35.0 4.06e-01 80.0% 81.7%
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 46.0 4.69e-01 87.1% 91.8%
4177200 4.1.1.3 ↗ beta barrels › SH3 › SH3 › SH3 › KOW 0.57 31.0 3.69e-01 83.5% 80.0%
2393363 223.2.1.1 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Profilin 0.57 40.0 3.46e-01 72.9% 47.1%
3706423 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.57 43.0 2.83e-01 82.4% 90.1%
3886961 222.1.1.17 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › PKS_DH_N 0.56 44.0 4.02e-01 87.1% 90.0%
3393982 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.56 44.0 2.85e-01 85.9% 44.5%
3488355 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.55 47.0 3.80e-01 95.3% 73.5%
3721374 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.55 39.0 3.76e-01 74.1% 96.0%
3571833 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 39.0 3.57e-01 75.3% 79.2%
3392308 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.55 37.0 3.59e-01 89.4% 62.1%
3599709 9.5.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Hypothetical protein TT1927B › Hypothetical protein TT1927B 0.55 40.0 3.13e-01 76.5% 72.0%
4026008 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 34.0 3.47e-01 88.2% 62.4%
3889733 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.55 47.0 3.67e-01 96.5% 66.8%
4232261 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.54 47.0 3.83e-01 96.5% 78.2%
3726485 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.54 41.0 2.54e-01 80.0% 85.1%
1924009 227.1.1.10 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_PAP 0.54 44.0 3.82e-01 89.4% 88.0%
3925891 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 38.0 3.81e-01 95.3% 71.1%
None — 0.53 38.0 2.85e-01 74.1% 76.8%
3789625 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.53 40.0 3.49e-01 82.4% 91.1%
5023031 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.53 42.0 3.77e-01 88.2% 91.2%
3743110 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.53 36.0 3.38e-01 85.9% 57.1%
4539150 719.1.1.5 ↗ beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain › PF27933 0.52 37.0 3.15e-01 72.9% 57.0%
3244229 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.52 36.0 3.15e-01 70.6% 74.4%
4011254 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.52 39.0 2.66e-01 80.0% 90.6%
3800238 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.52 45.0 3.31e-01 96.5% 68.3%
3598260 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.52 39.0 3.39e-01 94.1% 53.6%
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 0.52 41.0 3.69e-01 84.7% 82.6%
3702466 220.1.1.80 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › RME-8_N 0.52 40.0 3.55e-01 92.9% 58.3%
3582821 220.1.1.5 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PID 0.52 37.0 3.70e-01 89.4% 72.2%
3280978 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.51 31.0 3.36e-01 100.0% 72.9%
3499821 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.51 40.0 3.48e-01 84.7% 90.0%
5063609 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 37.0 3.40e-01 80.0% 60.2%
3342083 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.50 44.0 2.98e-01 94.1% 31.5%
3690077 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.50 39.0 2.71e-01 89.4% 26.4%
D2 high residues 345-438
PDB
Domain cluster: rep: leader_protease_2__YP_762677__Strawberry_chlorotic_fleck-associated_virus__399314__D127-210
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05533.19 best Peptidase_C42 45.1 1.20e-11 85.1% 81.8%
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gg3A02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.65 42.0 4.56e-01 84.0% 79.5%
3au4A02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.62 41.0 4.13e-01 85.1% 67.0%
4nlbA02 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.61 43.0 4.33e-01 74.5% 100.0%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.58 38.0 4.26e-01 75.5% 95.5%
2a19A02 1.10.150.190 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Translation initiation factor 2; subunit 1; domain 2 0.57 43.0 4.56e-01 80.9% 91.8%
2ltuA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.54 30.0 3.45e-01 81.9% 79.0%
1d2zA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.53 37.0 3.64e-01 81.9% 67.6%
1y9qA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.52 41.0 4.26e-01 87.2% 95.3%
3vp7A00 1.10.418.40 Mainly Alpha › Orthogonal Bundle › Actin-binding Protein, T-fimbrin; domain 1 › Autophagy protein 6/Beclin 1 0.51 40.0 3.47e-01 90.4% 95.2%
3cymA03 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.50 40.0 4.13e-01 91.5% 94.3%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1406103 3694.1.1.3 ↗ alpha bundles › Tail specific protease helical domain › Tail specific protease helical domain › Tail specific protease helical domain › TSP_NTD 0.60 45.0 3.48e-01 79.8% 84.6%
4202426 539.1.1.1 ↗ few secondary structure elements › Crustacean Hyperglycemic Hormone (CHH)-like › Crustacean Hyperglycemic Hormone (CHH)-like › Crustacean Hyperglycemic Hormone (CHH)-like › Crust_neurohorm 0.60 37.0 4.22e-01 86.2% 84.1%
3589846 2006.1.1.18 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD_2 0.58 46.0 3.57e-01 87.2% 71.4%
3406601 539.1.1.1 ↗ few secondary structure elements › Crustacean Hyperglycemic Hormone (CHH)-like › Crustacean Hyperglycemic Hormone (CHH)-like › Crustacean Hyperglycemic Hormone (CHH)-like › Crust_neurohorm 0.58 36.0 3.94e-01 89.4% 77.3%
4373693 132.1.1.1 ↗ alpha bundles › ACP-like › Acyl-carrier protein (ACP) › Acyl-carrier protein (ACP) › PP-binding 0.53 38.0 3.89e-01 89.4% 78.9%
4024456 101.1.2.663 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF7602 0.52 38.0 3.86e-01 100.0% 80.0%
4015167 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 41.0 2.85e-01 92.6% 58.2%
3738892 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.50 33.0 3.54e-01 87.2% 78.8%