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P3

Euk-Vir

Freesia_mosaic_virus

P3__YP_003587811__Freesia_mosaic_virus__421012

Identity

Accession:
YP_003587811 ↗
Protein ID:
P3
Kingdom:
euk

Quality

80.0 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Freesia_mosaic_virus

TaxID: 421012

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 1-183
PDB
Domain cluster: rep: P3__YP_009509100__Daphne_virus_Y__282712__D3-191
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13608.11 best Potyvirid-P3 92.2 5.50e-26 88.0% 33.4%
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3i9yA00 1.20.58.920 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 31.0 2.93e-01 94.5% 38.0%
3h36A00 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.55 25.0 3.62e-01 73.2% 96.2%
2hr2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 38.0 4.11e-01 71.6% 87.8%
7p3rA01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.51 40.0 3.29e-01 82.5% 100.0%
6a2aA01 1.50.10.130 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › Terpene synthase, N-terminal domain 0.51 37.0 3.63e-01 74.3% 89.9%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4253382 150.3.1.4 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine › IFN-gamma 0.69 34.0 4.19e-01 70.5% 72.5%
4932048 3543.1.1.0 ↗ alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel 0.59 43.0 4.34e-01 73.2% 85.6%
3195495 109.4.1.356 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.56 42.0 3.13e-01 76.5% 57.2%
4020850 3758.1.1.0 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins 0.53 40.0 3.46e-01 77.0% 92.5%
4995421 3281.1.2.1 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit 8 (Nqo8)-related › NADHdh 0.53 42.0 3.56e-01 82.5% 83.1%
3864123 633.21.1.10 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › MARVEL 0.53 33.0 3.84e-01 73.8% 86.9%
4162366 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 41.0 3.24e-01 84.7% 79.0%
D2 medium residues 288-349
PDB
Domain cluster: rep: P3_protein__YP_001816828__Telosma_mosaic_virus__400394__D286-347
CATH (32)
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 60.0 4.97e-01 82.3% 49.5%
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 0.76 53.0 5.55e-01 85.5% 80.7%
1bdp002 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.73 56.0 4.60e-01 82.3% 76.1%
7r97A01 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.70 49.0 3.68e-01 74.2% 30.4%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.69 54.0 5.43e-01 88.7% 100.0%
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 0.69 51.0 5.30e-01 90.3% 87.7%
6muwM00 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 4.20e-01 100.0% 93.9%
6muwB00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 60.0 4.05e-01 98.4% 64.2%
3rv0C02 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.68 47.0 3.63e-01 74.2% 31.2%
3s63A00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.67 54.0 4.87e-01 90.3% 64.8%
5fmgA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.67 59.0 4.00e-01 98.4% 65.3%
2qvwA04 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.66 48.0 3.68e-01 77.4% 50.3%
1rypA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.66 59.0 3.95e-01 100.0% 84.0%
6muwK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.66 58.0 4.12e-01 100.0% 70.8%
2vk9A03 1.10.3730.30 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › 0.66 49.0 4.18e-01 87.1% 50.0%
4ixjA02 3.30.1690.20 Alpha Beta › 2-Layer Sandwich › TcpA-like pilin › 0.66 55.0 4.28e-01 98.4% 95.2%
5fmgF00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.65 57.0 3.93e-01 98.4% 53.0%
1gvfB00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.63 46.0 3.01e-01 77.4% 23.6%
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 0.62 43.0 4.20e-01 82.3% 65.2%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.62 45.0 4.50e-01 88.7% 77.8%
3h20A04 1.10.1240.50 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.61 47.0 4.27e-01 87.1% 69.7%
4ysxC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.60 44.0 3.29e-01 77.4% 44.4%
4z4qA04 1.10.268.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 0.59 46.0 4.10e-01 85.5% 59.6%
2v8pA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.59 50.0 3.80e-01 98.4% 41.3%
2ld7B00 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.58 46.0 4.40e-01 88.7% 90.7%
4ye6A02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.57 42.0 4.33e-01 80.6% 89.7%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.56 37.0 3.86e-01 75.8% 75.4%
5jxxA02 1.20.1180.10 Mainly Alpha › Up-down Bundle › Udp N-acetylglucosamine O-acyltransferase; Domain 2 › Udp N-acetylglucosamine O-acyltransferase, C-terminal domain 0.55 44.0 4.38e-01 91.9% 90.9%
6a2aA01 1.50.10.130 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › Terpene synthase, N-terminal domain 0.55 45.0 3.17e-01 88.7% 98.5%
4xk2B00 3.20.20.100 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › NADP-dependent oxidoreductase domain 0.55 46.0 3.01e-01 100.0% 61.5%
1x4qA01 1.20.1390.10 Mainly Alpha › Up-down Bundle › PWI domain › PWI domain 0.54 42.0 4.04e-01 90.3% 77.5%
5e97A01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.52 44.0 3.00e-01 100.0% 74.2%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3973557 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.81 63.0 5.09e-01 82.3% 48.2%
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) 0.81 67.0 6.65e-01 91.9% 98.5%
5067843 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.79 55.0 6.07e-01 79.0% 90.0%
3668668 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.79 60.0 4.66e-01 90.3% 40.0%
3662896 101.1.1.411 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r2 0.78 59.0 4.60e-01 88.7% 40.0%
5063967 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.77 58.0 5.97e-01 90.3% 83.3%
2807554 101.1.1.27 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DsrC 0.76 61.0 5.09e-01 85.5% 52.4%
3259657 605.8.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › BAS1536-like › BAS1536-like 0.74 58.0 5.53e-01 82.3% 81.4%
3971933 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.74 53.0 5.22e-01 85.5% 72.3%
4253264 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.73 55.0 5.17e-01 90.3% 66.7%
4939370 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.72 51.0 4.32e-01 74.2% 49.0%
3858057 101.42.1.1 ↗ alpha arrays › HTH › CC2 domain in SUN proteins › CC2 domain in SUN proteins › HTH_SUN2 0.72 57.0 5.41e-01 93.5% 72.0%
4076621 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.70 52.0 5.73e-01 83.9% 98.0%
4876273 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.70 48.0 4.74e-01 87.1% 67.2%
4940618 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.69 55.0 5.09e-01 88.7% 70.0%
4252854 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.69 53.0 4.99e-01 87.1% 69.3%
4339699 101.1.1.29 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3 0.69 55.0 5.82e-01 100.0% 100.0%
3609798 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.68 57.0 4.60e-01 91.9% 83.5%
3334378 101.35.1.32 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › PF25874 0.67 51.0 5.38e-01 95.2% 96.4%
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 48.0 4.85e-01 87.1% 80.0%
4431870 108.1.1.8 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › S_100 0.66 54.0 4.81e-01 90.3% 85.6%
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 0.66 46.0 3.99e-01 74.2% 74.7%
1108030 171.1.1.1 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3 0.65 47.0 3.49e-01 77.4% 43.7%
4975657 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.65 57.0 3.88e-01 100.0% 57.9%
5062039 101.1.17.0 ↗ alpha arrays › HTH › HTH › FF domain 0.65 45.0 4.90e-01 82.3% 90.0%
3720948 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.62 50.0 4.66e-01 90.3% 73.4%
3787128 109.4.1.654 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TFB6 0.61 52.0 3.50e-01 95.2% 61.3%
3188397 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.59 48.0 4.00e-01 91.9% 93.9%
3402099 5043.2.1.5 ↗ extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain › ATP_synt_H 0.58 44.0 4.13e-01 82.3% 69.3%
3483392 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.57 46.0 3.45e-01 93.5% 59.4%
3879834 3684.1.1.54 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › RHG29_45_N 0.56 51.0 4.07e-01 100.0% 97.5%
3889216 509.1.1.3 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › USH1C_N 0.54 41.0 3.92e-01 85.5% 74.7%