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P3

Euk-Vir

Platycodon_mild_mottle_virus

P3__YP_010088111__Platycodon_mild_mottle_virus__2320870

Identity

Accession:
YP_010088111 ↗
Protein ID:
P3
Kingdom:
euk

Quality

76.8 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Platycodon_mild_mottle_virus

TaxID: 2320870

Cluster

View cluster (66 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 1-184
PDB
Domain cluster: rep: P3__YP_009509100__Daphne_virus_Y__282712__D3-191
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13608.11 best Potyvirid-P3 81.1 1.30e-22 91.3% 33.9%
D2 medium residues 289-348
PDB
Domain cluster: rep: P3_protein__YP_001816828__Telosma_mosaic_virus__400394__D286-347
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2nr7A00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.81 59.0 4.01e-01 85.0% 23.7%
2eucA00 1.10.8.570 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Hypothetical protein YfmB 0.76 62.0 5.05e-01 88.3% 51.4%
1txuA02 1.20.1050.80 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › VPS9 domain 0.74 64.0 4.54e-01 91.7% 42.5%
1ku2A02 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 0.74 56.0 5.78e-01 88.3% 86.0%
4ixjA01 3.30.1300.80 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 0.71 58.0 5.33e-01 90.0% 89.6%
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 0.71 53.0 5.42e-01 90.0% 86.0%
1f45B00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.69 51.0 3.90e-01 78.3% 57.9%
3b0dB00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.69 56.0 4.79e-01 88.3% 65.3%
3ilkA02 1.10.8.590 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 44.0 4.21e-01 73.3% 58.8%
1gvfB00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.67 49.0 3.15e-01 76.7% 23.3%
7tvcA01 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.67 53.0 4.22e-01 86.7% 44.2%
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 0.66 49.0 4.42e-01 83.3% 58.0%
6muwB00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.65 56.0 3.79e-01 98.3% 58.5%
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 46.0 3.06e-01 78.3% 28.1%
6e5bN00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.63 56.0 3.90e-01 100.0% 54.8%
4ixjA02 3.30.1690.20 Alpha Beta › 2-Layer Sandwich › TcpA-like pilin › 0.63 56.0 4.20e-01 100.0% 95.2%
2z3xA00 6.10.10.80 Special › Helix non-globular › Helicase, Ruva Protein; domain 3 › Small, acid-soluble spore protein, alpha/beta type-like 0.62 42.0 4.31e-01 73.3% 75.0%
2v8pA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.62 53.0 3.96e-01 98.3% 40.6%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.61 49.0 3.60e-01 85.0% 37.9%
2kp8A00 1.20.5.170 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.61 45.0 4.24e-01 90.0% 65.3%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.61 46.0 4.62e-01 83.3% 93.7%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.61 45.0 4.43e-01 85.0% 73.4%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.61 48.0 4.59e-01 85.0% 77.9%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.60 48.0 4.36e-01 85.0% 80.0%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.60 50.0 3.87e-01 91.7% 94.6%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.60 51.0 4.02e-01 91.7% 82.1%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 43.0 4.14e-01 90.0% 67.6%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.59 52.0 4.55e-01 95.0% 96.5%
2ld7B00 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.58 45.0 4.23e-01 85.0% 84.0%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.58 47.0 3.98e-01 90.0% 70.6%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 44.0 4.39e-01 83.3% 84.1%
3zgxA02 6.10.140.1720 Special › Helix non-globular › Helix Hairpins › 0.58 48.0 4.14e-01 90.0% 71.4%
3fixA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 45.0 3.39e-01 90.0% 71.5%
4z4qA04 1.10.268.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 0.57 47.0 4.14e-01 91.7% 64.0%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.57 39.0 3.99e-01 73.3% 75.4%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.56 41.0 3.85e-01 81.7% 64.8%
6humG01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.55 51.0 3.67e-01 100.0% 85.0%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.55 45.0 4.58e-01 88.3% 89.7%
3fhnA02 1.20.58.1420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain B 0.55 46.0 3.73e-01 93.3% 77.8%
3k6hA01 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.55 45.0 3.30e-01 91.7% 83.8%
3lynB00 1.20.150.10 Mainly Alpha › Up-down Bundle › Lysin › Fertilization protein 0.54 45.0 3.57e-01 93.3% 88.7%
4ye6A02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.54 40.0 4.04e-01 83.3% 89.7%
4qgpB00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.52 44.0 3.76e-01 100.0% 63.6%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5063967 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.84 62.0 6.28e-01 85.0% 78.3%
5067843 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.78 57.0 6.21e-01 81.7% 92.0%
3662896 101.1.1.411 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r2 0.76 62.0 4.77e-01 91.7% 41.6%
3690556 148.1.1.0 ↗ alpha arrays › Histone-like › Histone-related › Histone 0.76 52.0 5.27e-01 73.3% 71.7%
4076621 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.75 55.0 5.91e-01 86.7% 94.0%
3303765 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.74 57.0 4.17e-01 90.0% 31.2%
4948021 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.74 65.0 5.90e-01 96.7% 78.8%
3329805 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.74 56.0 4.10e-01 90.0% 30.6%
4452303 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.74 59.0 5.73e-01 90.0% 78.5%
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) 0.73 61.0 5.96e-01 93.3% 96.9%
4029754 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 0.72 51.0 4.52e-01 76.7% 52.9%
4550123 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.71 58.0 5.85e-01 96.7% 90.0%
4339699 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.71 58.0 6.05e-01 96.7% 98.2%
3599791 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.71 57.0 3.51e-01 91.7% 15.8%
4253264 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.70 57.0 5.32e-01 91.7% 70.7%
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 0.70 51.0 5.18e-01 78.3% 85.0%
3971933 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.70 58.0 5.67e-01 95.0% 83.1%
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 0.69 53.0 4.68e-01 81.7% 57.6%
4518420 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.67 61.0 5.92e-01 100.0% 96.9%
3214018 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.67 48.0 4.02e-01 86.7% 47.4%
5027859 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.66 46.0 3.55e-01 73.3% 84.8%
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 0.66 51.0 4.89e-01 90.0% 72.9%
4148139 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.66 58.0 4.30e-01 98.3% 43.9%
3277923 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.65 46.0 4.09e-01 83.3% 53.0%
4131842 101.1.3.25 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Sigma70_r3 0.65 56.0 5.27e-01 98.3% 86.7%
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 0.64 47.0 4.56e-01 86.7% 70.8%
3938318 4992.1.1.0 ↗ extended segments › RelB-like › RelB-like › RelB-like 0.64 54.0 4.26e-01 91.7% 82.5%
5044927 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 0.64 49.0 4.98e-01 81.7% 96.7%
4574972 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.63 46.0 4.61e-01 90.0% 76.7%
4012407 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 0.61 49.0 4.92e-01 85.0% 85.0%
5052725 3826.1.1.0 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.60 48.0 4.58e-01 88.3% 74.3%
3953372 150.5.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100 0.59 48.0 4.03e-01 86.7% 53.1%
3976486 3826.1.1.1 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Trns_repr_metal 0.59 49.0 4.21e-01 88.3% 87.8%
3247204 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.59 48.0 4.86e-01 90.0% 86.7%
5078224 601.33.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.59 47.0 3.87e-01 88.3% 72.7%
3264065 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.59 49.0 4.41e-01 90.0% 68.8%
5020418 601.3.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › Hpt 0.59 53.0 4.00e-01 100.0% 89.3%
3948731 192.10.1.1 ↗ alpha bundles › Long alpha-hairpin › DnaK suppressor protein DksA, alpha-hairpin domain › DnaK suppressor protein DksA, alpha-hairpin domain › DksA_N 0.58 49.0 3.82e-01 90.0% 48.3%
4613072 101.1.2.721 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2, PF27113 0.58 48.0 3.45e-01 90.0% 32.7%
3973158 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 0.58 48.0 4.34e-01 90.0% 68.8%
2546344 3826.1.1.1 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Trns_repr_metal 0.57 45.0 4.57e-01 85.0% 85.0%
5045248 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.57 48.0 4.30e-01 93.3% 76.5%
5002349 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.57 47.0 4.57e-01 90.0% 84.6%
4010395 622.4.1.26 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › HisKA 0.56 46.0 4.39e-01 90.0% 78.6%
3982421 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.56 46.0 4.25e-01 90.0% 73.3%
5039745 2003.1.1.36 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › 3HCDH_N 0.55 40.0 2.76e-01 78.3% 20.9%
3950977 5058.1.1.9 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Colicin_V 0.55 44.0 3.41e-01 95.0% 94.8%
4929363 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.53 46.0 3.70e-01 96.7% 84.3%
4980072 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 46.0 3.42e-01 100.0% 62.0%