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P3

Euk-Vir

Euphorbia_ringspot_virus

P3__YP_009310042__Euphorbia_ringspot_virus__291286

Identity

Accession:
YP_009310042 ↗
Protein ID:
P3
Kingdom:
euk

Quality

78.3 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Euphorbia_ringspot_virus

TaxID: 291286

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 1-199
PDB
Domain cluster: rep: P3__YP_009509100__Daphne_virus_Y__282712__D3-191
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13608.11 best Potyvirid-P3 87.4 1.60e-24 88.9% 35.4%
D2 high residues 297-350
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2eucA00 1.10.8.570 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Hypothetical protein YfmB 0.78 65.0 5.13e-01 90.7% 46.7%
2zb9A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.74 53.0 5.50e-01 94.4% 82.0%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.70 58.0 5.62e-01 96.3% 96.8%
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 0.69 54.0 5.32e-01 90.7% 82.5%
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 0.67 49.0 4.86e-01 92.6% 77.2%
2z3xA00 6.10.10.80 Special › Helix non-globular › Helicase, Ruva Protein; domain 3 › Small, acid-soluble spore protein, alpha/beta type-like 0.66 45.0 4.51e-01 72.2% 80.4%
3ilkA02 1.10.8.590 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.66 43.0 3.96e-01 79.6% 52.9%
6muwM00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.64 58.0 3.83e-01 100.0% 53.5%
3fdiB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.64 41.0 2.83e-01 85.2% 20.1%
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 0.63 50.0 4.34e-01 90.7% 54.5%
1jhfA02 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 0.63 47.0 4.46e-01 92.6% 66.7%
5fmgA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.63 53.0 3.60e-01 100.0% 53.0%
6muwB00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.62 55.0 3.63e-01 100.0% 47.6%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.62 51.0 4.91e-01 92.6% 100.0%
6muwK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.62 54.0 3.69e-01 100.0% 46.2%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.61 50.0 4.25e-01 94.4% 57.4%
3a2vD02 3.30.1020.10 Alpha Beta › 2-Layer Sandwich › Antioxidant, Horf6; Chain A, domain 2 › Antioxidant, Horf6; Chain A, domain2 0.61 47.0 3.95e-01 85.2% 89.5%
3b0dB00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.61 51.0 4.29e-01 96.3% 60.0%
1rypA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.61 52.0 3.45e-01 100.0% 48.1%
6qm7A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.61 53.0 3.45e-01 100.0% 56.6%
1f45B00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.58 47.0 3.56e-01 90.7% 46.6%
3dv9A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.58 48.0 4.45e-01 94.4% 78.6%
4xrvB01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.57 45.0 3.54e-01 96.3% 87.5%
1kqpA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.56 45.0 2.99e-01 96.3% 68.3%
2w43A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.56 42.0 4.23e-01 92.6% 98.2%
2v8pA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.55 47.0 3.49e-01 100.0% 38.1%
8ctsB01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 45.0 4.00e-01 98.1% 71.3%
1l1lA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.55 45.0 2.62e-01 90.7% 20.0%
2oexA02 1.20.140.50 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › alix/aip1 like domains 0.55 45.0 3.08e-01 92.6% 26.9%
3vovA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 44.0 3.25e-01 92.6% 65.6%
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 0.54 40.0 3.33e-01 87.0% 60.7%
1mkiA02 1.10.1500.10 Mainly Alpha › Orthogonal Bundle › Probable Glutaminase Ybgj; Chain: A, domain 2 › 0.53 43.0 3.37e-01 100.0% 73.9%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.52 40.0 3.87e-01 85.2% 95.2%
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 0.51 40.0 2.59e-01 87.0% 17.9%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3973557 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.80 68.0 5.34e-01 94.4% 47.3%
3662896 101.1.1.411 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r2 0.79 60.0 4.49e-01 92.6% 35.2%
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 0.77 58.0 4.11e-01 92.6% 27.8%
2807554 101.1.1.27 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DsrC 0.76 65.0 5.29e-01 96.3% 50.5%
4948021 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.76 61.0 5.29e-01 94.4% 58.7%
4452303 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.75 57.0 5.37e-01 92.6% 67.7%
5067843 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.74 55.0 5.68e-01 88.9% 86.0%
4253264 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.74 55.0 4.98e-01 92.6% 58.7%
4131842 101.1.3.25 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Sigma70_r3 0.73 55.0 4.97e-01 92.6% 58.7%
3971933 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.73 55.0 5.20e-01 92.6% 67.7%
3329805 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.73 55.0 3.91e-01 92.6% 27.5%
3482082 3476.1.1.0 ↗ alpha arrays › RecQL4 helicase N-terminal domain › RecQL4 helicase N-terminal domain › RecQL4 helicase N-terminal domain 0.73 57.0 5.24e-01 92.6% 65.7%
4988114 3646.1.1.1 ↗ alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › CbiQ 0.71 54.0 3.50e-01 81.5% 62.1%
4024288 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.70 60.0 4.91e-01 100.0% 52.4%
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 0.70 57.0 5.51e-01 88.9% 85.0%
3268630 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.70 56.0 4.67e-01 94.4% 50.5%
4944111 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.69 55.0 5.05e-01 94.4% 67.1%
5050325 4333.1.1.0 ↗ a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.69 49.0 3.04e-01 77.8% 14.0%
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) 0.69 57.0 5.45e-01 96.3% 89.2%
4339699 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.69 56.0 5.58e-01 100.0% 90.9%
4886009 3435.1.1.1 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC 0.69 45.0 2.83e-01 75.9% 12.3%
4550123 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.69 55.0 5.41e-01 100.0% 83.3%
5007881 101.1.2.181 ↗ alpha arrays › HTH › HTH › winged helix domain › MCM_C 0.68 53.0 4.54e-01 94.4% 52.2%
3936891 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.67 56.0 4.69e-01 94.4% 58.9%
3256155 192.20.1.6 ↗ alpha bundles › Long alpha-hairpin › helical hairpin domain in transcriptional anti-activator ExsD › helical hairpin domain in transcriptional anti-activator ExsD › PF26116 0.67 54.0 4.46e-01 98.1% 49.5%
3606823 3476.1.1.0 ↗ alpha arrays › RecQL4 helicase N-terminal domain › RecQL4 helicase N-terminal domain › RecQL4 helicase N-terminal domain 0.67 52.0 5.09e-01 98.1% 76.7%
3948820 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.67 54.0 4.64e-01 100.0% 55.6%
4547746 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.66 44.0 3.78e-01 74.1% 41.1%
4665743 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.66 55.0 4.55e-01 100.0% 50.5%
None — 0.65 55.0 3.32e-01 100.0% 33.4%
5054485 5055.1.1.0 ↗ extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel 0.65 54.0 4.70e-01 90.7% 92.5%
3439039 101.1.1.66 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_5 0.65 54.0 4.11e-01 94.4% 40.0%
3738331 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.64 45.0 4.53e-01 77.8% 72.7%
3977441 5054.1.1.8 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.63 44.0 3.67e-01 74.1% 43.2%
4562263 3435.1.1.1 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC 0.63 43.0 2.71e-01 72.2% 12.8%
4858758 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.62 55.0 3.76e-01 100.0% 55.0%
3235055 3065.1.1.2 ↗ alpha bundles › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Gp-FAR-1 0.62 53.0 3.92e-01 100.0% 76.8%
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 0.62 46.0 3.97e-01 85.2% 50.6%
4058877 101.1.2.27 ↗ alpha arrays › HTH › HTH › winged helix domain › LexA_DNA_bind 0.62 49.0 4.57e-01 94.4% 70.0%
3487530 210.1.1.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Proteasome_A_N 0.62 54.0 3.51e-01 100.0% 42.9%
3599791 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.62 52.0 3.17e-01 96.3% 15.0%
3579615 103.1.1.3 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › CRAL_TRIO_N 0.61 41.0 3.59e-01 74.1% 44.7%
3259657 605.8.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › BAS1536-like › BAS1536-like 0.61 49.0 4.53e-01 88.9% 72.9%
4940618 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.59 46.0 4.10e-01 94.4% 58.7%
3717378 2005.1.1.18 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › NAD_synthase 0.58 48.0 3.10e-01 98.1% 63.7%
3715199 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.57 50.0 3.03e-01 100.0% 66.5%
5039745 2003.1.1.36 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › 3HCDH_N 0.57 42.0 2.73e-01 94.4% 18.7%
5002913 2.21.1.3 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.56 47.0 3.45e-01 100.0% 82.4%
5027571 2486.1.1.3 ↗ a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Carboxyl_trans 0.56 47.0 2.74e-01 100.0% 85.7%
3687403 3567.1.1.104 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › EMP70 0.53 46.0 3.43e-01 100.0% 56.6%
5027859 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.52 40.0 3.01e-01 85.2% 37.0%
4966124 101.1.2.924 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF7342 0.52 42.0 3.09e-01 92.6% 40.6%
331637 3435.1.1.1 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC 0.51 43.0 2.72e-01 96.3% 42.2%
D3 medium residues 200-296
PDB
Domain cluster: representative