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P3_protein

Euk-Vir

Bidens_mottle_virus

P3_protein__YP_006423949__Bidens_mottle_virus__433357

Identity

Accession:
YP_006423949 ↗
Protein ID:
P3_protein
Kingdom:
euk

Quality

77.2 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Bidens_mottle_virus

TaxID: 433357

Cluster

View cluster (66 members)

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 30-219
PDB
Domain cluster: rep: P3__YP_009509100__Daphne_virus_Y__282712__D3-191
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13608.11 best Potyvirid-P3 170.7 8.40e-50 96.3% 34.3%
D2 medium residues 311-363
PDB
Domain cluster: rep: P3_protein__YP_001816828__Telosma_mosaic_virus__400394__D286-347
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1txuA02 1.20.1050.80 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › VPS9 domain 0.82 71.0 4.94e-01 94.3% 48.8%
2nr7A00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.80 64.0 4.29e-01 96.2% 23.7%
2eucA00 1.10.8.570 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Hypothetical protein YfmB 0.77 69.0 5.42e-01 100.0% 52.3%
7v7yA01 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.77 58.0 3.64e-01 83.0% 19.4%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.76 66.0 6.27e-01 98.1% 100.0%
1bh9B00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.74 58.0 4.92e-01 86.8% 55.1%
1l0oC00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.72 56.0 5.48e-01 96.2% 80.7%
1a3qA01 2.60.40.340 Mainly Beta › Sandwich › Immunoglobulin-like › Rel homology domain (RHD), DNA-binding domain 0.72 50.0 3.46e-01 77.4% 21.8%
6muwM00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.71 63.0 4.17e-01 100.0% 61.5%
2ma3A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.71 55.0 4.69e-01 86.8% 53.4%
1bdp002 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.70 61.0 4.77e-01 96.2% 78.0%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.70 59.0 4.98e-01 98.1% 62.8%
6muwB00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.70 61.0 3.98e-01 98.1% 36.2%
1gvfB00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.70 53.0 3.35e-01 83.0% 21.8%
5y27A00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.69 60.0 4.96e-01 100.0% 57.1%
3b0dB00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.69 61.0 5.03e-01 100.0% 65.3%
3v9rA00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.69 58.0 4.91e-01 100.0% 56.8%
6e5bN00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.69 60.0 4.03e-01 98.1% 39.2%
5fmgF00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 61.0 4.00e-01 100.0% 37.9%
1wtyA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.68 57.0 4.49e-01 96.2% 49.1%
6muwK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 59.0 4.04e-01 100.0% 55.4%
7lxuE01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.67 58.0 3.88e-01 98.1% 38.8%
3ilkA02 1.10.8.590 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 47.0 4.34e-01 83.0% 57.4%
4bqqB02 3.90.1750.20 Alpha Beta › Alpha-Beta Complex › Hect, E3 ligase catalytic domain fold › Putative Large Serine Recombinase; Chain B, Domain 2 0.67 46.0 3.19e-01 73.6% 20.5%
2bg1A01 3.90.1310.40 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › 0.66 49.0 4.33e-01 79.2% 64.9%
4p63D00 3.40.910.10 Alpha Beta › 3-Layer(aba) Sandwich › Deoxyhypusine Synthase › Deoxyhypusine synthase 0.65 54.0 3.38e-01 96.2% 23.4%
4ixjA02 3.30.1690.20 Alpha Beta › 2-Layer Sandwich › TcpA-like pilin › 0.65 53.0 4.02e-01 100.0% 66.0%
3u9rB02 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.64 49.0 3.18e-01 86.8% 28.5%
2z3xA00 6.10.10.80 Special › Helix non-globular › Helicase, Ruva Protein; domain 3 › Small, acid-soluble spore protein, alpha/beta type-like 0.63 45.0 4.48e-01 81.1% 73.2%
5gj7A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.63 54.0 4.16e-01 100.0% 69.6%
1sfxB00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.62 45.0 3.74e-01 94.3% 41.3%
2v8pA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.62 54.0 3.91e-01 100.0% 39.4%
4ye6A02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 48.0 4.76e-01 88.7% 89.7%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.60 49.0 4.70e-01 92.5% 93.7%
2daxA01 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.60 43.0 3.31e-01 81.1% 30.5%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.60 49.0 4.75e-01 94.3% 80.6%
2vk9A03 1.10.3730.30 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › 0.58 42.0 3.60e-01 84.9% 44.9%
2dy1A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 46.0 2.99e-01 92.5% 59.6%
5deqB02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.58 41.0 3.62e-01 92.5% 49.4%
1ihuA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 44.0 2.90e-01 84.9% 20.8%
4toiA02 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.56 46.0 4.80e-01 98.1% 100.0%
4z4qA04 1.10.268.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 0.54 48.0 4.00e-01 98.1% 58.4%
1darA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 41.0 2.71e-01 96.2% 53.9%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3216262 377.1.1.23 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › SIX1_SD 0.87 66.0 4.90e-01 83.0% 35.0%
None — 0.85 71.0 4.94e-01 98.1% 31.3%
4452303 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.85 67.0 6.25e-01 94.3% 69.2%
5067843 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.84 63.0 6.47e-01 84.9% 84.0%
3664504 142.1.1.3 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 0.82 71.0 4.91e-01 98.1% 31.0%
3668668 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.82 72.0 5.23e-01 98.1% 39.2%
3459967 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.82 71.0 5.29e-01 98.1% 41.5%
2807554 101.1.1.27 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DsrC 0.82 67.0 5.27e-01 88.7% 50.5%
3329805 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.81 64.0 4.45e-01 98.1% 28.1%
4452096 142.1.1.1 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r1_2,Sigma70_r2 0.81 73.0 4.83e-01 98.1% 48.2%
5063967 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.80 64.0 6.21e-01 96.2% 78.3%
4339699 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.80 64.0 6.34e-01 96.2% 83.6%
3662896 101.1.1.411 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r2 0.80 68.0 5.05e-01 98.1% 39.2%
4550123 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.80 63.0 6.11e-01 96.2% 76.7%
3943035 639.2.1.0 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) 0.78 69.0 6.47e-01 100.0% 95.4%
4148139 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.78 62.0 4.38e-01 96.2% 29.7%
4076621 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.76 61.0 6.32e-01 94.3% 92.0%
3690556 148.1.1.0 ↗ alpha arrays › Histone-like › Histone-related › Histone 0.76 57.0 5.53e-01 83.0% 71.7%
4253264 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.76 65.0 5.70e-01 98.1% 65.3%
972045 148.1.1.18 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-S 0.74 56.0 4.93e-01 86.8% 55.0%
4131842 101.1.3.25 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Sigma70_r3 0.74 64.0 5.63e-01 100.0% 66.7%
5000806 251.1.1.1 ↗ a+b two layers › FYSH domain › FYSH domain › FYSH domain › SBDS 0.74 56.0 4.29e-01 83.0% 37.4%
3350634 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.73 64.0 4.08e-01 100.0% 39.3%
3989035 4230.1.1.3 ↗ alpha arrays › DnaD domain › DnaD domain › DnaD domain › DnaB_2 0.73 53.0 4.40e-01 88.7% 44.2%
4945590 101.1.11.0 ↗ alpha arrays › HTH › HTH › Ribbon-helix-helix 0.72 49.0 4.86e-01 71.7% 69.1%
5039745 2003.1.1.36 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › 3HCDH_N 0.72 56.0 3.57e-01 83.0% 31.1%
3881313 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.71 53.0 5.00e-01 90.6% 66.2%
3480784 148.1.1.18 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-S 0.70 56.0 5.80e-01 90.6% 94.0%
3611998 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.70 55.0 5.24e-01 90.6% 81.5%
3481731 148.1.1.18 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-S 0.70 56.0 4.67e-01 92.5% 50.5%
3486786 165.3.1.0 ↗ alpha duplicates or obligate multimers › Dimerisation interlock › Phenylalanine zipper › Phenylalanine zipper 0.69 56.0 5.62e-01 88.7% 98.2%
4886009 3435.1.1.1 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC 0.69 49.0 3.04e-01 81.1% 13.3%
5052929 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 61.0 4.10e-01 100.0% 66.0%
3259657 605.8.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › BAS1536-like › BAS1536-like 0.68 57.0 5.21e-01 94.3% 80.0%
4016091 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.68 57.0 4.80e-01 96.2% 56.5%
3183783 148.1.1.18 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-S 0.67 57.0 4.54e-01 98.1% 46.4%
5046448 181.1.1.0 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins 0.67 51.0 4.98e-01 84.9% 83.3%
3662110 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 58.0 3.92e-01 100.0% 53.8%
4663875 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.67 56.0 3.58e-01 94.3% 20.4%
4562263 3435.1.1.1 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC 0.67 48.0 2.99e-01 81.1% 13.5%
4042207 148.1.1.18 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-S 0.66 55.0 4.15e-01 94.3% 39.2%
3788874 148.1.1.18 ↗ alpha arrays › Histone-like › Histone-related › Histone › CENP-S 0.66 56.0 4.44e-01 98.1% 46.4%
3477235 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 51.0 4.21e-01 88.7% 46.0%
3531209 105.1.1.1 ↗ alpha duplicates or obligate multimers › HLH-like › HLH, helix-loop-helix DNA-binding domain › HLH, helix-loop-helix DNA-binding domain › HLH 0.64 52.0 4.83e-01 92.5% 72.9%
3288971 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.64 50.0 3.72e-01 98.1% 32.0%
4975657 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.64 54.0 3.58e-01 98.1% 33.6%
None — 0.62 52.0 3.08e-01 94.3% 88.0%
3972992 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.62 53.0 4.95e-01 94.3% 90.8%
3599791 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.60 50.0 3.06e-01 100.0% 14.7%
3617570 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.58 52.0 3.66e-01 98.1% 68.1%
3717378 2005.1.1.18 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › NAD_synthase 0.57 51.0 3.17e-01 100.0% 54.6%