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HC-Pro

Euk-Vir

Apium_virus_Y

HC-Pro__YP_004123955__Apium_virus_Y__168135

Identity

Accession:
YP_004123955 ↗
Protein ID:
HC-Pro
Kingdom:
euk

Quality

86.3 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Potyvirus_apii

TaxID: 168135

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 medium residues 25-106
PDB
Domain cluster: rep: HC-Pro__YP_009252411__Tobacco_mosqueado_virus__1792583__D31-64_66-104
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00851.25 best Peptidase_C6 36.9 3.00e-09 98.8% 17.5%
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ceqA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 49.0 3.46e-01 85.4% 22.8%
2gnoA03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.70 51.0 4.81e-01 76.8% 65.0%
2pqrA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 45.0 4.34e-01 86.6% 59.1%
1gt0D00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.64 47.0 4.79e-01 76.8% 91.1%
2ikbC00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.64 55.0 4.53e-01 100.0% 88.2%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.64 56.0 5.01e-01 98.8% 73.3%
1q16C01 1.20.950.20 Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C 0.63 54.0 3.96e-01 92.7% 51.4%
3ez0C00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.63 53.0 4.00e-01 93.9% 63.0%
1nigA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.61 52.0 4.30e-01 93.9% 91.1%
4gf0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 53.0 4.79e-01 97.6% 83.2%
4c9bB00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.61 44.0 3.12e-01 92.7% 23.1%
4hehA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.61 38.0 3.83e-01 74.4% 61.4%
4pxoA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 52.0 4.51e-01 96.3% 73.3%
2v6kA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 53.0 4.52e-01 96.3% 73.8%
3n71A03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.60 53.0 3.94e-01 100.0% 38.0%
3nivC02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 51.0 4.50e-01 96.3% 77.4%
3kyiA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.60 45.0 3.97e-01 93.9% 53.1%
1ugoA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.59 53.0 5.02e-01 100.0% 87.9%
5tqbB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.59 53.0 3.46e-01 97.6% 71.1%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.58 49.0 4.37e-01 95.1% 92.3%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.57 50.0 4.57e-01 96.3% 93.6%
1siqA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.57 47.0 3.92e-01 93.9% 65.2%
3ismC01 1.25.40.240 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ku, C-terminal domain 0.57 48.0 3.93e-01 92.7% 50.0%
1dd5A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.57 46.0 4.31e-01 92.7% 88.1%
3lbxB01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 47.0 4.30e-01 90.2% 85.0%
2juaA00 1.20.1480.30 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › Designed four-helix bundle protein 0.57 48.0 4.47e-01 95.1% 75.5%
3pe0A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 47.0 4.45e-01 92.7% 94.1%
1bc0A03 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.57 41.0 4.11e-01 92.7% 74.4%
2qywA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.56 48.0 4.60e-01 95.1% 93.7%
3fb2A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 47.0 4.37e-01 92.7% 90.5%
3n00A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.56 42.0 3.30e-01 91.5% 35.9%
1cunA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 48.0 4.48e-01 93.9% 94.1%
3lomA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.56 49.0 3.41e-01 100.0% 94.8%
3ztaA00 1.10.490.130 Mainly Alpha › Orthogonal Bundle › Globin-like › 0.56 48.0 4.07e-01 95.1% 72.7%
4yzgA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.56 47.0 3.32e-01 98.8% 72.1%
3dpjF00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 40.0 3.13e-01 78.0% 57.4%
4nuuB02 1.20.58.830 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 45.0 3.95e-01 91.5% 89.4%
2vixA03 1.20.1280.240 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.54 45.0 4.15e-01 97.6% 92.0%
3pe0A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 45.0 4.20e-01 95.1% 88.7%
4uurA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.53 45.0 3.99e-01 97.6% 95.2%
2ycdA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.53 43.0 3.92e-01 92.7% 73.5%
1ll1A01 1.20.1370.10 Mainly Alpha › Up-down Bundle › Hemocyanin, N-terminal domain › Hemocyanin, N-terminal domain 0.52 39.0 3.67e-01 80.5% 97.0%
3wd6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.52 44.0 3.95e-01 96.3% 71.2%
1htjF00 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.51 40.0 3.18e-01 86.6% 86.3%
7ccmB01 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.51 41.0 3.44e-01 89.0% 62.2%
4o6yB00 1.20.120.1770 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.50 40.0 3.13e-01 92.7% 42.2%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3726818 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.74 54.0 4.33e-01 90.2% 40.6%
3641132 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.69 51.0 3.92e-01 92.7% 35.0%
3522050 109.3.1.131 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › INT_SG_DDX_CT_C 0.68 44.0 4.64e-01 91.5% 73.0%
3465231 192.15.1.189 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Frigida 0.67 54.0 5.51e-01 91.5% 91.3%
3411668 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.66 46.0 4.81e-01 87.8% 80.0%
4485359 103.2.1.0 ↗ alpha arrays › RuvA-C › ATP cone › ATP cone 0.65 39.0 3.74e-01 84.1% 51.6%
3916833 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.64 46.0 4.65e-01 74.4% 90.0%
3582455 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.64 48.0 5.00e-01 90.2% 89.3%
3191246 109.1.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C 0.63 56.0 4.72e-01 100.0% 75.7%
7430 235.1.1.13 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glyco_hydro_108,PG_binding_3 0.63 54.0 4.42e-01 100.0% 90.2%
4976483 131.1.1.10 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_3 0.63 53.0 4.08e-01 95.1% 81.5%
3971416 109.1.1.37 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_N_2 0.62 54.0 4.09e-01 100.0% 47.6%
3319387 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.62 54.0 3.98e-01 100.0% 43.5%
None — 0.61 54.0 4.09e-01 100.0% 47.8%
222409 109.1.1.6 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_2 0.61 53.0 4.58e-01 98.8% 69.6%
3707094 109.4.1.628 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec7-like_HUS 0.61 51.0 3.64e-01 92.7% 34.5%
3640330 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 54.0 4.58e-01 100.0% 88.6%
1153586 109.1.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C 0.61 53.0 4.60e-01 98.8% 75.6%
3976725 532.2.1.1 ↗ alpha arrays › Type III secretion system domain-like › Type III secretion system domains › Type III secretion system domains › HrpJ 0.61 49.0 3.90e-01 86.6% 56.4%
3741603 603.1.1.5 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin-6_N 0.61 50.0 4.37e-01 90.2% 65.6%
3367300 101.1.10.7 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_C 0.61 48.0 3.82e-01 84.1% 66.9%
3240658 109.4.1.409 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Arm,IBB,Arm_3 0.61 42.0 3.01e-01 90.2% 23.1%
3255703 310.2.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.60 50.0 4.54e-01 90.2% 86.2%
3239387 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.60 53.0 3.98e-01 100.0% 73.8%
3975479 109.1.1.6 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_2 0.60 51.0 4.50e-01 98.8% 75.4%
3742209 6140.1.1.0 ↗ alpha superhelices › Cdc45-Binding Domain in Sld3/Treslin › Cdc45-Binding Domain in Sld3/Treslin › Cdc45-Binding Domain in Sld3/Treslin 0.60 47.0 3.40e-01 85.4% 87.2%
3519620 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.60 45.0 4.13e-01 80.5% 92.7%
3921192 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.59 48.0 4.29e-01 89.0% 87.8%
3368223 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.58 48.0 3.60e-01 92.7% 39.5%
4013731 601.1.1.12 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › AflR 0.58 49.0 4.02e-01 93.9% 55.3%
3755130 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.57 45.0 4.20e-01 86.6% 85.7%
3250251 4967.1.1.16 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › TERT_C 0.57 48.0 3.59e-01 96.3% 75.9%
3872563 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.56 46.0 4.18e-01 92.7% 81.7%
3474685 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.56 47.0 4.21e-01 93.9% 83.5%
3785011 106.1.1.0 ↗ alpha arrays › Globin-like › Globin-like › Globin-like 0.56 44.0 3.97e-01 86.6% 98.3%
3784566 604.1.1.191 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF29057 0.56 43.0 4.11e-01 85.4% 100.0%
3841673 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.55 46.0 4.33e-01 92.7% 94.0%
3876659 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 46.0 3.26e-01 92.7% 37.9%
3620806 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.55 46.0 3.66e-01 92.7% 55.9%
3271444 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 48.0 3.38e-01 98.8% 41.8%
3497641 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.55 45.0 4.29e-01 92.7% 96.0%
3272035 109.21.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nup96 0.54 48.0 2.86e-01 100.0% 54.8%
3427778 604.1.1.144 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF26575 0.54 44.0 4.53e-01 91.5% 98.8%
2134378 11.1.1.153 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ERAP1_C 0.54 39.0 3.92e-01 76.8% 84.7%
3168872 192.15.1.1 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › VPS28 0.54 44.0 4.06e-01 89.0% 81.0%
3854561 601.1.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Vinculin 0.54 45.0 3.92e-01 100.0% 66.4%
3965294 3558.1.1.0 ↗ alpha arrays › HSDR subunit helical domain › HSDR subunit helical domain › HSDR subunit helical domain 0.53 41.0 3.95e-01 82.9% 77.9%
3243599 601.1.2.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.53 45.0 4.11e-01 98.8% 83.5%
5019542 622.4.1.67 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › DUF5518 0.53 43.0 4.09e-01 90.2% 87.9%
3260526 650.1.1.0 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain 0.53 33.0 3.19e-01 74.4% 53.7%
3197870 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 43.0 3.68e-01 91.5% 78.5%
3177741 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.52 38.0 3.59e-01 78.0% 88.0%
3274009 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 42.0 2.96e-01 92.7% 28.2%
3539008 109.3.1.338 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › TPR_ZSWIM8 0.51 41.0 3.18e-01 93.9% 75.2%
2758018 1042.1.1.1 ↗ a+b complex topology › S2 subunit of coronavirus spike glycoprotein › S2 subunit of coronavirus spike glycoprotein › S2 subunit of coronavirus spike glycoprotein › CoV_S2 0.50 36.0 2.32e-01 76.8% 39.2%
D2 medium residues 112-178
PDB
Domain cluster: rep: HC-Pro_protein__YP_006405405__Basella_rugose_mosaic_virus__373398__D110-165
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00851.25 best Peptidase_C6 38.6 9.40e-10 100.0% 14.8%
D3 medium residues 193-209_222-275_328-338
PDB
Domain cluster: rep: HC-Pro__YP_001936179__Verbena_virus_Y__515446__D186-209_223-267_313-337
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00851.25 best Peptidase_C6 26.6 4.10e-06 96.3% 18.9%
D4 medium residues 210-221_276-327_339-458
PDB
Domain cluster: rep: HC-Pro_protein__YP_006590094__Chinese_yam_necrotic_mosaic_virus__128818__D95-261
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00851.25 best Peptidase_C6 221.8 2.40e-65 99.5% 41.6%