←Back to structures

NIa-Pro_protein

Euk-Vir

Cucumber_vein_yellowing_virus

NIa-Pro_protein__YP_308884__Cucumber_vein_yellowing_virus__137475

Identity

Accession:
YP_308884 ↗
Protein ID:
NIa-Pro_protein
Kingdom:
euk

Quality

79.9 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Ipomovirus› Cucumber_vein_yellowing_virus

TaxID: 137475

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 medium residues 1-96_187-205
PDB
Domain cluster: rep: NIa-VPg-Pro_protein__YP_002956094__Triticum_mosaic_virus__431317__D201-288_375-394
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00863.26 best Peptidase_C4 36.9 3.40e-09 87.0% 28.3%
D2 medium residues 97-186
PDB
Domain cluster: rep: ORF1a__YP_009047079__Human_astrovirus_BF34__1518575__D522-618
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00863.26 best Peptidase_C4 59.0 6.00e-16 100.0% 36.5%
CATH (36)
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 80.0 7.42e-01 97.8% 75.9%
1zyoA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.83 69.0 6.64e-01 100.0% 78.2%
1lvoA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.78 62.0 6.34e-01 100.0% 87.5%
5hmaA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.77 71.0 6.78e-01 100.0% 89.4%
2hlcA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.76 70.0 6.19e-01 100.0% 87.3%
3otpA01 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.76 71.0 5.30e-01 100.0% 46.3%
2zgcA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.75 70.0 6.17e-01 100.0% 88.9%
1azzA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.73 68.0 6.10e-01 100.0% 88.2%
5fcrA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.72 66.0 5.92e-01 100.0% 88.5%
3cp7B02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.72 66.0 6.25e-01 100.0% 85.7%
2bhgA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.71 64.0 6.14e-01 100.0% 86.3%
2j5uA03 2.40.10.350 Mainly Beta › Beta Barrel › Thrombin, subunit H › Rod shape-determining protein MreC, domain 2 0.69 58.0 6.12e-01 92.2% 100.0%
3dnhA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.68 60.0 5.09e-01 100.0% 94.0%
3nziA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.67 53.0 5.06e-01 95.6% 73.6%
3h96C00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.66 56.0 4.85e-01 92.2% 82.6%
1wosA04 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.66 49.0 5.01e-01 84.4% 82.6%
1v5vA03 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.65 45.0 4.82e-01 80.0% 86.7%
1n26A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 40.0 4.31e-01 77.8% 78.2%
3ttgA00 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.61 44.0 3.00e-01 83.3% 20.5%
3nkgA00 2.60.120.790 Mainly Beta › Sandwich › Jelly Rolls › 0.58 45.0 3.77e-01 87.8% 95.3%
4m8rA01 2.60.40.3920 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 43.0 4.14e-01 81.1% 95.1%
1a8dA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.56 43.0 3.35e-01 83.3% 85.4%
3l5iA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 42.0 4.24e-01 80.0% 100.0%
2mc2A00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.56 49.0 3.74e-01 96.7% 98.5%
1k5dB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 46.0 3.99e-01 95.6% 75.3%
4ecnA01 2.60.40.3540 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4458 0.54 46.0 4.46e-01 96.7% 89.3%
4h3wA02 2.60.120.1260 Mainly Beta › Sandwich › Jelly Rolls › 0.53 40.0 3.42e-01 81.1% 79.6%
2xklA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 36.0 3.11e-01 72.2% 73.2%
1owwA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.81e-01 81.1% 97.8%
1djxA03 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.51 45.0 4.00e-01 98.9% 77.9%
2b3rA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.51 44.0 3.97e-01 96.7% 79.8%
1xf1A05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 45.0 4.40e-01 100.0% 99.0%
3lmlA03 2.60.40.4290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 28.0 2.85e-01 87.8% 52.9%
1ddvA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 42.0 4.09e-01 95.6% 95.2%
8shiI01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 37.0 3.57e-01 78.9% 83.7%
1wfwA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.50 29.0 3.08e-01 95.6% 64.9%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
257 1.1.5.3 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Peptidase_C4 0.88 79.0 5.68e-01 100.0% 38.4%
3783834 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.82 76.0 5.34e-01 100.0% 39.6%
3447254 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.81 70.0 5.09e-01 100.0% 37.3%
3867774 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.81 75.0 4.57e-01 100.0% 18.4%
3449628 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.80 68.0 6.26e-01 100.0% 71.3%
3772106 1.1.17.3 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin_2 0.78 73.0 5.29e-01 100.0% 42.2%
3545090 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.78 73.0 5.32e-01 100.0% 43.2%
3783835 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.78 72.0 5.05e-01 100.0% 45.7%
3452728 1.1.17.3 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin_2 0.78 73.0 5.43e-01 100.0% 45.9%
4166426 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.77 73.0 5.04e-01 100.0% 35.1%
3408358 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.77 72.0 4.93e-01 100.0% 33.2%
3394133 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.77 72.0 5.22e-01 100.0% 50.2%
170199 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.74 68.0 5.07e-01 100.0% 41.7%
3485102 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.73 66.0 5.63e-01 100.0% 75.2%
3364575 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.70 63.0 5.16e-01 100.0% 88.4%
5039871 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.69 63.0 4.48e-01 100.0% 36.2%
3482605 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.65 44.0 4.14e-01 70.0% 91.8%
3970225 1.1.13.68 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › PF27125 0.64 52.0 5.24e-01 94.4% 88.9%
4668960 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 42.0 3.95e-01 70.0% 67.3%
3649347 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.60 51.0 4.40e-01 95.6% 66.9%
4992080 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 43.0 3.78e-01 77.8% 97.8%
4936008 1.1.7.28 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › HAS-barrel 0.58 41.0 4.04e-01 73.3% 74.7%
3933152 11.1.1.835 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_Irg-7 0.56 42.0 3.75e-01 80.0% 97.7%
3736411 4.1.1.246 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_Coilin 0.56 38.0 3.90e-01 70.0% 88.2%
3474366 220.1.1.4 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ran_BP1 0.56 47.0 4.11e-01 95.6% 78.6%
3923150 220.1.1.4 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ran_BP1 0.55 47.0 4.25e-01 95.6% 88.8%
3927305 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 47.0 4.47e-01 95.6% 99.1%
5026837 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 44.0 4.45e-01 96.7% 90.0%
3268160 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 40.0 4.01e-01 98.9% 77.8%
4023315 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.54 36.0 3.70e-01 70.0% 85.6%
3439745 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.54 43.0 2.71e-01 88.9% 91.6%
3564452 220.1.1.4 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ran_BP1 0.54 46.0 2.61e-01 95.6% 10.8%
3897477 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 37.0 3.85e-01 77.8% 80.0%
3219546 220.1.1.4 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ran_BP1 0.53 45.0 3.88e-01 95.6% 73.3%
4030715 220.1.1.4 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ran_BP1 0.53 45.0 4.07e-01 96.7% 81.5%
4019659 220.1.1.213 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7614 0.53 45.0 3.66e-01 96.7% 76.7%
3370218 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.52 43.0 3.17e-01 94.4% 79.6%
4885862 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.52 43.0 3.25e-01 94.4% 74.6%
3939695 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 39.0 3.92e-01 81.1% 94.4%
4607738 4.1.1.17 ↗ beta barrels › SH3 › SH3 › SH3 › Ribosomal_L19 0.51 42.0 4.01e-01 91.1% 78.2%
3624214 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 37.0 3.85e-01 80.0% 87.1%
3402093 11.1.1.822 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF229 0.51 38.0 3.76e-01 81.1% 94.7%
3605363 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.50 44.0 3.81e-01 97.8% 75.0%
4889559 6.1.1.35 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › MIR, Ins145_P3_rec 0.50 44.0 3.17e-01 97.8% 61.0%
3690350 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 42.0 3.91e-01 95.6% 97.5%
3193765 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 42.0 3.62e-01 95.6% 90.7%