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leader_protease_2

Euk-Vir

Rose_leaf_rosette-associated_virus

leader_protease_2__YP_009059064__Rose_leaf_rosette-associated_virus__1543207

Identity

Accession:
YP_009059064 ↗
Protein ID:
leader_protease_2
Kingdom:
euk

Quality

72.7 mean pLDDT

Taxonomy

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

TaxID: 1543207

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 4-52
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05533.19 best Peptidase_C42 30.2 5.30e-07 100.0% 47.7%
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rnvA00 3.90.70.150 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Helper component proteinase 0.69 59.0 4.44e-01 98.0% 62.6%
3m4xA01 3.30.70.1170 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sun protein; domain 3 0.59 35.0 2.89e-01 77.6% 33.0%
1z4mA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.59 43.0 3.07e-01 100.0% 27.3%
8bypX01 3.90.1240.10 Alpha Beta › Alpha-Beta Complex › Zincin-like › "Metalloproteases (""zincins""), catalytic domain like" 0.54 44.0 2.64e-01 100.0% 32.5%
1a3zA00 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.52 37.0 2.70e-01 77.6% 40.0%
4tpsD00 3.30.300.180 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › DnaA, N-terminal domain 0.50 37.0 3.16e-01 81.6% 86.9%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4987784 2003.1.5.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Met_10 0.55 40.0 2.53e-01 79.6% 23.6%
3942252 3261.1.1.8 ↗ a+b two layers › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb › DUF2612 0.54 39.0 3.20e-01 83.7% 81.8%
4109430 327.10.1.3 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ribosome-binding factor A (RbfA)-related › Ribosome-binding factor A (RbfA)-related › DnaA_N 0.54 38.0 3.44e-01 79.6% 98.7%
2554619 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.53 33.0 1.99e-01 89.8% 8.0%
39525 3156.1.1.7 ↗ beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related › SoxE 0.52 37.0 2.74e-01 81.6% 41.2%
D2 high residues 61-158
PDB
Domain cluster: rep: leader_protease_2__YP_762677__Strawberry_chlorotic_fleck-associated_virus__399314__D23-110
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3c6kA01 3.30.160.110 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Sirohaem synthase, central domain 0.62 36.0 3.72e-01 83.7% 59.6%
1iucA00 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.61 44.0 3.15e-01 76.5% 95.8%
4ghbA00 2.40.160.190 Mainly Beta › Beta Barrel › Porin › 0.61 43.0 3.19e-01 74.5% 44.7%
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 28.0 3.35e-01 70.4% 62.7%
1zy9A03 2.60.40.2760 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 28.0 3.91e-01 74.5% 100.0%
3kh8A02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.59 45.0 4.15e-01 83.7% 94.0%
3c4sA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 30.0 3.82e-01 79.6% 86.0%
1p6pA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 36.0 3.30e-01 72.4% 49.6%
2ci8A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.55 32.0 3.95e-01 78.6% 100.0%
3flpA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.53 42.0 3.28e-01 84.7% 67.7%
2a2jA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 42.0 3.32e-01 84.7% 93.1%
6c1zA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 39.0 3.49e-01 77.6% 100.0%
3wkmB01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.53 37.0 3.84e-01 73.5% 84.0%
1azpA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 33.0 3.90e-01 80.6% 95.5%
4mveA00 2.40.128.580 Mainly Beta › Beta Barrel › Lipocalin › GXWXG domain 0.51 39.0 3.47e-01 82.7% 83.7%
5x6vG00 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 37.0 3.34e-01 74.5% 71.2%
2ywqA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.51 36.0 3.79e-01 94.9% 83.0%
2wxwA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.50 37.0 3.26e-01 79.6% 81.0%
6j8yC00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.50 38.0 2.88e-01 80.6% 49.8%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4266074 394.1.1.1 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.70 37.0 4.64e-01 89.8% 85.0%
5014879 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.64 46.0 4.45e-01 76.5% 93.0%
4941490 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.62 46.0 4.13e-01 77.6% 78.5%
3993651 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.61 41.0 3.01e-01 70.4% 88.5%
4177200 4.1.1.3 ↗ beta barrels › SH3 › SH3 › SH3 › KOW 0.61 31.0 3.90e-01 80.6% 85.5%
185765 5084.5.1.13 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › DUF4595 0.61 43.0 3.19e-01 74.5% 44.7%
2323841 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.59 43.0 2.95e-01 77.6% 94.8%
3675511 4.1.1.75 ↗ beta barrels › SH3 › SH3 › SH3 › NdhS 0.58 30.0 3.34e-01 79.6% 61.3%
3231101 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.58 38.0 2.78e-01 93.9% 24.7%
3342083 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.58 46.0 3.22e-01 94.9% 27.8%
3941391 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 29.0 3.63e-01 79.6% 78.3%
4529966 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 40.0 2.78e-01 71.4% 95.5%
3403839 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.58 31.0 3.21e-01 75.5% 55.6%
4348606 4.1.1.440 ↗ beta barrels › SH3 › SH3 › SH3 › PF27165 0.57 28.0 3.32e-01 81.6% 67.7%
3672678 222.1.1.0 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase 0.56 40.0 4.21e-01 74.5% 87.1%
3743110 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.54 32.0 3.22e-01 77.6% 55.2%
4450167 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.53 33.0 2.44e-01 75.5% 23.5%
4056032 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.53 34.0 2.62e-01 74.5% 28.6%
4973612 5.1.2.7 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_130 0.53 44.0 3.01e-01 90.8% 81.9%
3839234 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 37.0 3.66e-01 74.5% 87.6%
1924009 227.1.1.10 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_PAP 0.51 39.0 3.58e-01 81.6% 93.2%
3323488 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.51 41.0 2.96e-01 98.0% 28.7%
None — 0.51 42.0 2.95e-01 98.0% 27.9%
3974238 5.1.3.132 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Phytase-like 0.50 41.0 2.88e-01 87.8% 71.6%
3514660 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.50 32.0 3.37e-01 73.5% 70.0%
3690077 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.50 35.0 2.54e-01 71.4% 91.3%
4083083 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.50 36.0 2.58e-01 94.9% 25.0%
5023031 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.50 38.0 3.57e-01 81.6% 96.0%