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2C

Euk-Vir

Caprine_kobuvirus

2C__YP_009001376__Caprine_kobuvirus__1452516

Identity

Accession:
YP_009001376 ↗
Protein ID:
2C
Kingdom:
euk

Quality

85.8 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Pisoniviricetes› Picornavirales› Picornaviridae› Kobuvirus› Caprine_kobuvirus

TaxID: 1452516

Cluster

View cluster (62 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 15-126
PDB
Domain cluster: rep: 2C__YP_003853294__Passerivirus_A1__871699__D1-117
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4egwA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.81 60.0 5.86e-01 75.9% 97.5%
4hwdD00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.80 55.0 6.13e-01 70.5% 100.0%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 56.0 5.02e-01 75.9% 100.0%
6tkyA03 1.20.58.740 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DOCK DHR2 domain, lobe C 0.76 52.0 5.08e-01 70.5% 84.4%
1t98A02 1.20.58.590 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chromosome partition protein MukF, middle domain 0.75 54.0 4.75e-01 74.1% 81.6%
2vxxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.75 53.0 4.54e-01 73.2% 87.2%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.74 53.0 4.49e-01 73.2% 85.7%
2rkkA01 1.25.40.270 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Vacuolar protein sorting-associated protein vta1 0.72 54.0 4.78e-01 77.7% 58.3%
2i0mA01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.72 49.0 5.09e-01 70.5% 94.3%
2va8A03 1.10.3380.30 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › 0.70 49.0 3.87e-01 71.4% 79.3%
1chuA03 1.20.58.100 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain 0.70 50.0 5.58e-01 73.2% 93.2%
1zs3A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.67 52.0 4.49e-01 81.2% 89.5%
6d5xA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.66 51.0 4.59e-01 80.4% 100.0%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.65 46.0 4.70e-01 72.3% 78.3%
1j1jA02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.65 47.0 5.27e-01 75.9% 100.0%
1wn0A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.64 42.0 4.02e-01 74.1% 56.5%
3peuB00 1.25.40.510 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › GLE1-like 0.64 44.0 3.25e-01 75.9% 26.8%
1sziA02 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.63 47.0 4.36e-01 77.7% 74.5%
4hkaA01 1.20.58.480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 48.0 3.57e-01 83.9% 87.1%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.61 45.0 4.34e-01 77.7% 71.5%
1ymgA00 1.20.1080.10 Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. 0.60 45.0 3.56e-01 78.6% 51.5%
2r17C00 1.25.40.660 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Vacuolar protein sorting-associated protein 35, helical subcomplex Vps35-C 0.56 47.0 3.49e-01 92.0% 55.4%
1ldjA03 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.54 38.0 3.84e-01 72.3% 86.1%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3496002 604.5.1.0 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.79 56.0 5.09e-01 72.3% 74.1%
3743875 109.4.1.359 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Exo70_C 0.78 63.0 3.89e-01 83.9% 36.5%
3792012 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.76 52.0 5.78e-01 71.4% 100.0%
4987762 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.75 58.0 5.65e-01 80.4% 80.8%
3932690 604.3.1.0 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.74 56.0 6.16e-01 79.5% 100.0%
3947 150.1.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.74 53.0 4.44e-01 73.2% 83.3%
3534927 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.72 51.0 4.88e-01 71.4% 71.2%
4017157 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.72 57.0 4.97e-01 83.0% 97.0%
5027021 604.5.1.2 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.72 53.0 5.27e-01 76.8% 87.8%
4963427 604.2.1.0 ↗ alpha bundles › Spectrin repeat-like › Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain › Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain 0.72 49.0 5.36e-01 70.5% 97.9%
3495590 109.4.1.649 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF4807 0.71 52.0 4.26e-01 75.9% 67.5%
3365571 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.71 49.0 5.10e-01 70.5% 84.8%
3239689 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.71 49.0 5.05e-01 70.5% 87.6%
3457190 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.71 52.0 4.78e-01 76.8% 62.8%
3210969 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.71 49.0 5.27e-01 70.5% 94.7%
3585432 604.1.1.98 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin_Anc-1 0.70 52.0 5.16e-01 75.9% 94.8%
3436288 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.70 49.0 4.65e-01 71.4% 69.2%
4174064 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 48.0 4.79e-01 72.3% 96.5%
3667914 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.67 47.0 5.03e-01 72.3% 100.0%
4420069 109.4.1.218 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SNAP 0.67 49.0 3.47e-01 75.0% 34.6%
4946005 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 56.0 4.54e-01 88.4% 74.5%
3924586 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.67 46.0 4.32e-01 71.4% 74.3%
4927849 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.65 45.0 4.16e-01 71.4% 60.0%
3938941 109.4.1.649 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF4807 0.65 50.0 4.76e-01 80.4% 93.8%
4959083 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.65 49.0 4.35e-01 82.1% 68.8%
3998932 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.64 52.0 4.61e-01 90.2% 69.4%
4002622 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.63 49.0 5.06e-01 79.5% 98.1%
3575213 109.4.1.649 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF4807 0.63 49.0 4.56e-01 81.2% 88.6%
3994644 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.63 53.0 3.19e-01 92.0% 19.0%
3615596 3758.1.1.0 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins 0.62 48.0 3.57e-01 81.2% 70.7%
3379947 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 52.0 4.46e-01 94.6% 70.3%
3245201 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.58 48.0 4.50e-01 90.2% 76.4%
3394451 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.55 44.0 4.28e-01 88.4% 83.8%
3256198 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.55 44.0 4.21e-01 87.5% 80.0%
D2 medium residues 127-155_265-330
PDB
Domain cluster: representative
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF00910.29 best RNA_helicase 21.8 3.10e-04 82.1% 25.7%
PF00004.36 AAA 22.0 2.60e-04 57.9% 16.8%
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3cvvA02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.55 37.0 3.33e-01 91.6% 48.9%
3beaA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.52 40.0 3.28e-01 82.1% 86.1%
8jx6B01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 37.0 2.98e-01 76.8% 83.0%
2pjrA03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 29.0 2.78e-01 72.6% 48.1%
4ys0A02 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.50 35.0 2.87e-01 78.9% 40.0%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3188398 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.53 36.0 2.82e-01 83.2% 31.9%
3957923 132.1.1.1 ↗ alpha bundles › ACP-like › Acyl-carrier protein (ACP) › Acyl-carrier protein (ACP) › PP-binding 0.52 38.0 3.94e-01 98.9% 82.2%
D3 medium residues 156-264
PDB
Domain cluster: rep: highly_derived_D5-like_helicase-primase__YP_003406787__Marseillevirus_marseillevirus__694581__D555-677
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00910.29 best RNA_helicase 77.9 1.10e-21 68.8% 70.5%