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NIa_protease

Euk-Vir

Cardamom_mosaic_virus

NIa_protease__YP_009509114__Cardamom_mosaic_virus__104637

Identity

Accession:
YP_009509114 ↗
Protein ID:
NIa_protease
Kingdom:
euk

Quality

82.6 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Macluravirus› Cardamom_mosaic_virus

TaxID: 104637

Cluster

View cluster (187 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 100-171
PDB
Domain cluster: rep: hypothetical_protein_1__YP_009336741__Shahe_picorna-like_virus_12__1923442__D757-836
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00548.27 best Peptidase_C3 29.3 1.10e-06 79.2% 16.9%
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1lvbA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.91 85.0 7.27e-01 100.0% 69.4%
2as9B01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.83 70.0 6.19e-01 100.0% 64.4%
3k6yA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.83 76.0 6.59e-01 100.0% 79.4%
1havB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.83 76.0 6.69e-01 100.0% 86.4%
1wczA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.82 75.0 6.31e-01 100.0% 61.7%
1zyoA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.81 71.0 6.28e-01 100.0% 68.3%
2zgcA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.81 74.0 6.05e-01 100.0% 78.6%
5hmaA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.80 73.0 6.40e-01 100.0% 77.9%
3cp7B02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.79 73.0 6.37e-01 100.0% 76.2%
1p3cA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.79 72.0 6.33e-01 100.0% 72.4%
3l6pA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.79 68.0 6.01e-01 100.0% 65.7%
1agjA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.79 72.0 5.76e-01 100.0% 56.0%
4lk4A01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.78 72.0 5.92e-01 100.0% 68.8%
3h7tB01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.78 71.0 5.88e-01 100.0% 79.5%
1lvoA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.76 65.0 6.07e-01 100.0% 76.1%
2hrvA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.75 69.0 6.25e-01 100.0% 82.1%
1hpgA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.75 69.0 6.16e-01 100.0% 77.8%
2wv9A01 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.75 66.0 5.02e-01 100.0% 45.3%
4r8tB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.74 60.0 5.97e-01 100.0% 86.3%
1flmA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.73 65.0 5.47e-01 100.0% 86.9%
3dnhA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.73 64.0 5.07e-01 100.0% 74.8%
4fvdA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.73 66.0 6.01e-01 100.0% 83.0%
2arzA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.72 64.0 5.06e-01 100.0% 76.0%
4xhyA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.72 64.0 4.95e-01 100.0% 72.0%
5yjlD01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.72 63.0 5.11e-01 100.0% 70.4%
2r0xA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.71 62.0 4.89e-01 100.0% 76.3%
3bnkA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.71 62.0 4.63e-01 100.0% 65.1%
1l1jA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.71 62.0 5.33e-01 100.0% 79.7%
3nziA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.69 61.0 5.40e-01 100.0% 71.7%
5choF00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.69 60.0 4.73e-01 100.0% 77.5%
4yo1A01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.69 59.0 5.57e-01 100.0% 78.7%
3u28C00 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.69 55.0 5.04e-01 93.1% 66.3%
4yhbA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.67 53.0 4.48e-01 88.9% 75.2%
4rqyA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.67 57.0 4.90e-01 100.0% 59.3%
4l82A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.63 53.0 4.28e-01 100.0% 75.0%
3l48A01 2.60.40.2070 Mainly Beta › Sandwich › Immunoglobulin-like › PapC, C-terminal domain 0.62 49.0 4.84e-01 100.0% 82.9%
4m8rA01 2.60.40.3920 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 44.0 3.99e-01 84.7% 65.0%
4ecnA02 2.60.40.3540 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4458 0.57 49.0 4.23e-01 100.0% 72.1%
7nitA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 42.0 3.69e-01 81.9% 74.8%
2z04B03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.55 44.0 3.37e-01 91.7% 86.6%
2h6uA00 2.60.40.180 Mainly Beta › Sandwich › Immunoglobulin-like › Transthyretin/hydroxyisourate hydrolase domain 0.55 47.0 4.13e-01 100.0% 71.9%
3jcuO01 2.40.160.30 Mainly Beta › Beta Barrel › Porin › Photosystem II, cytochrome c-550 precursor 0.54 40.0 3.10e-01 81.9% 76.7%
4p04A01 2.60.40.3100 Mainly Beta › Sandwich › Immunoglobulin-like › Arylsulphate sulphotransferase monomer, N-terminal domain 0.53 40.0 3.65e-01 84.7% 60.4%
5eliA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 40.0 3.53e-01 84.7% 72.3%
4h75A00 2.80.10.70 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › Spindlin/Ssty 0.52 41.0 3.10e-01 90.3% 92.5%
1r8nA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.52 41.0 3.16e-01 90.3% 85.9%
3q5zA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 41.0 3.52e-01 91.7% 88.4%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
257 1.1.5.3 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Peptidase_C4 0.87 82.0 5.60e-01 100.0% 34.2%
3867774 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.85 78.0 4.59e-01 100.0% 15.9%
3464880 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.84 78.0 5.40e-01 100.0% 37.7%
3545090 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.84 77.0 5.35e-01 100.0% 38.6%
3772106 1.1.17.3 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin_2 0.84 77.0 5.32e-01 100.0% 37.8%
4011912 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.84 77.0 5.18e-01 100.0% 37.6%
5016520 1.1.17.3 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin_2 0.83 76.0 5.22e-01 100.0% 39.1%
3637221 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.83 76.0 5.06e-01 100.0% 35.1%
3783835 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.82 75.0 5.01e-01 100.0% 41.9%
None — 0.82 75.0 5.29e-01 100.0% 36.2%
4387060 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.82 75.0 5.26e-01 100.0% 35.3%
3280223 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.82 73.0 5.20e-01 100.0% 35.4%
3969197 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.81 75.0 4.98e-01 100.0% 33.2%
4247805 1.1.5.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin 0.81 74.0 5.21e-01 100.0% 36.0%
3694033 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.81 75.0 5.88e-01 100.0% 54.3%
4031177 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.80 74.0 5.16e-01 100.0% 35.5%
3066474 1.1.17.2 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Peptidase_C3 0.80 74.0 5.18e-01 100.0% 39.4%
5051302 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.80 73.0 5.03e-01 100.0% 33.8%
3730611 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.80 74.0 5.01e-01 100.0% 33.2%
3695446 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.79 74.0 4.95e-01 100.0% 32.0%
3210165 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.78 67.0 4.91e-01 93.1% 85.9%
None — 0.77 69.0 5.24e-01 100.0% 45.2%
3996398 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.77 59.0 5.55e-01 80.6% 68.2%
4964309 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.77 57.0 5.65e-01 77.8% 78.4%
3244773 1.1.5.49 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF316 0.76 68.0 4.61e-01 100.0% 30.8%
4614564 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.75 69.0 4.92e-01 100.0% 39.0%
3364575 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.73 65.0 4.99e-01 100.0% 69.5%
4263415 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.72 56.0 5.18e-01 83.3% 70.0%
4881914 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.71 63.0 4.58e-01 100.0% 35.8%
4525111 1.1.7.126 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Peptidase_S7 0.64 59.0 5.67e-01 100.0% 97.5%
3951408 206.1.3.7 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › ATP-grasp 0.56 45.0 3.11e-01 93.1% 59.0%
3217448 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 37.0 3.67e-01 84.7% 68.0%
3703828 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 41.0 3.35e-01 84.7% 43.6%
3176265 4.11.1.1 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S24 0.54 37.0 2.97e-01 70.8% 43.9%
3621303 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 36.0 3.06e-01 70.8% 59.2%
3925589 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 39.0 3.99e-01 100.0% 81.4%
3210653 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 35.0 3.68e-01 100.0% 76.9%
3795541 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 43.0 3.87e-01 98.6% 93.6%
3656952 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 46.0 3.92e-01 100.0% 79.1%
3236244 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 43.0 3.82e-01 100.0% 99.1%
3358147 220.1.1.241 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › EPL1 0.51 45.0 3.12e-01 100.0% 36.8%
4014854 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.51 41.0 2.83e-01 95.8% 86.5%
4041376 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.51 34.0 3.37e-01 70.8% 72.5%
3507146 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.50 34.0 3.22e-01 98.6% 57.6%
D2 medium residues 16-89_173-202
PDB
Domain cluster: rep: NIa-VPg-Pro_protein__YP_002956094__Triticum_mosaic_virus__431317__D201-288_375-394