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VPg

Euk-Vir

Lupinus_mosaic_virus

VPg__YP_004123948__Lupinus_mosaic_virus__573615

Identity

Accession:
YP_004123948 ↗
Protein ID:
VPg
Kingdom:
euk

Quality

85.6 mean pLDDT

Cluster

View cluster (80 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 4-53
PDB
Domain cluster: rep: VPg__YP_010088115__Platycodon_mild_mottle_virus__2320870__D9-53
D2 high residues 67-146_158-178
PDB
Domain cluster: rep: NIa-VPg__YP_010088104__Passiflora_edulis_symptomless_virus__2294149__D66-176
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2iqgA02 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.62 55.0 4.28e-01 100.0% 78.8%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.59 31.0 3.87e-01 94.1% 85.0%
2re7A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 51.0 4.70e-01 97.0% 89.4%
4l9cA00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.57 36.0 3.23e-01 100.0% 42.7%
1wv4B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 49.0 4.33e-01 98.0% 70.8%
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.56 31.0 3.83e-01 94.1% 85.7%
2i51B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 49.0 4.02e-01 98.0% 81.7%
2aq6A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 49.0 4.41e-01 97.0% 90.9%
3kg6C00 3.10.129.110 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Polyketide synthase dehydratase 0.56 43.0 3.14e-01 82.2% 96.4%
2i02A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 49.0 4.44e-01 100.0% 87.1%
2j82A00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.55 47.0 3.67e-01 95.0% 87.8%
2ou5A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 48.0 4.07e-01 100.0% 90.3%
5o16B00 3.10.129.110 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Polyketide synthase dehydratase 0.54 42.0 3.11e-01 83.2% 95.2%
3esiA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.53 39.0 3.72e-01 78.2% 90.3%
3mswA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.53 38.0 3.46e-01 89.1% 54.7%
1ylxA00 3.30.70.1480 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GK1464-like 0.53 33.0 3.38e-01 100.0% 63.6%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 41.0 4.28e-01 91.1% 91.3%
4r03A00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.52 42.0 4.14e-01 91.1% 79.8%
4r8oA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.51 39.0 4.03e-01 88.1% 84.7%
4jndA02 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.50 41.0 3.10e-01 92.1% 84.2%
6jkvA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.50 44.0 3.47e-01 100.0% 97.0%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3481359 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.63 45.0 4.58e-01 99.0% 75.0%
3267956 11.1.1.1311 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF28708 0.61 44.0 4.14e-01 75.2% 64.2%
3211415 11.1.1.888 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3, DB 0.60 40.0 3.11e-01 76.2% 31.6%
4006605 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.59 39.0 3.47e-01 97.0% 43.9%
3290861 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.59 51.0 4.68e-01 100.0% 72.3%
3286318 1.1.5.8 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx 0.57 52.0 4.37e-01 100.0% 69.4%
305361 1.1.5.30 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Pyridox_oxase_2 0.56 49.0 4.02e-01 98.0% 81.7%
4944741 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 36.0 3.30e-01 100.0% 47.9%
3928720 73.1.1.0 ↗ beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain 0.55 44.0 3.88e-01 86.1% 82.0%
3496629 3351.1.1.1 ↗ a/b three-layered sandwiches › Atg7 N-terminal domain-like › N-terminal domain in E1 enzyme Atg7 › N-terminal domain in E1 enzyme Atg7 › ATG7_N 0.55 45.0 3.87e-01 92.1% 82.4%
3927907 223.2.1.16 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › LAMTOR5 0.54 31.0 3.32e-01 76.2% 63.5%
3979569 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.54 33.0 3.30e-01 95.0% 55.5%
3691461 868.1.1.3 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › Med20 0.53 41.0 3.12e-01 86.1% 99.6%
3520059 9.1.1.1 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin 0.52 35.0 3.39e-01 98.0% 58.3%
4928827 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 36.0 3.42e-01 97.0% 56.9%
3410333 11.1.1.673 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CUT_N 0.52 40.0 3.85e-01 85.1% 72.2%
3968900 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.52 45.0 4.30e-01 96.0% 95.8%
3611540 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.51 42.0 2.84e-01 93.1% 32.0%
5019210 12.3.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.50 42.0 3.20e-01 92.1% 81.6%