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NC_070967.1__YP_010671253.1__PQC17_gp104__00104

Bact-Vir

NC_070967.1__YP_010671253.1__PQC17_gp104__00104

Identity

Accession:
NC_070967 ↗
Kingdom:
phage

Quality

75.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Kleczkowskaviridae› Cuauhnahuacvirus› Rhizobium_phage_RHph_Y65

TaxID: 2509785

Cluster

Singleton — not in a non-trivial cluster

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 8-69
PDB
Domain cluster: representative
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1tu3J00 1.20.5.730 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Single helix bin 0.73 45.0 4.88e-01 93.5% 73.6%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.69 53.0 5.38e-01 82.3% 93.5%
2oh3A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.61 49.0 3.73e-01 87.1% 81.9%
1sr4C00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.60 52.0 3.97e-01 100.0% 87.7%
3e98B00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.58 40.0 2.95e-01 74.2% 74.7%
2r6fA04 1.10.8.280 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › ABC transporter ATPase domain-like 0.58 45.0 3.69e-01 87.1% 82.2%
3dboB00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.55 49.0 3.88e-01 100.0% 96.0%
1k3kA00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.52 39.0 3.15e-01 87.1% 44.5%
3s0aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.52 38.0 3.17e-01 80.6% 52.1%
5xfaA04 1.20.1440.230 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain 0.52 40.0 3.64e-01 85.5% 95.3%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3348160 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.67 42.0 4.60e-01 83.9% 81.2%
3445061 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.66 48.0 4.80e-01 88.7% 75.4%
3696938 209.1.1.0 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like 0.65 53.0 4.21e-01 91.9% 83.1%
3488329 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.63 54.0 4.30e-01 98.4% 96.2%
4339224 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.62 53.0 3.84e-01 96.8% 84.9%
3496457 304.9.1.78 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PF28978 0.62 54.0 4.53e-01 100.0% 91.8%
3691111 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.61 51.0 3.80e-01 96.8% 84.4%
3484511 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.58 40.0 3.27e-01 72.6% 46.7%
3899554 3736.1.1.1 ↗ alpha superhelices › NLRC4 helical domain HD2 › NLRC4 helical domain HD2 › NLRC4 helical domain HD2 › NLRC4_HD2 0.58 47.0 3.73e-01 90.3% 67.7%
4940971 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.58 50.0 3.30e-01 100.0% 25.5%
3164679 11.1.1.335 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › GlgB_N 0.58 41.0 3.56e-01 100.0% 47.0%
4346148 821.1.1.12 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › PF29812 0.57 49.0 3.98e-01 100.0% 76.8%
5024461 304.28.1.38 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › CAA_C 0.57 47.0 3.61e-01 100.0% 87.3%
3404684 10.12.1.84 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › VKGC_lumenal_dom 0.56 47.0 3.38e-01 100.0% 35.7%
5000728 10.28.1.1 ↗ beta sandwiches › jelly-roll › Jelly-roll domain in Zinc finger protein ZPR1 › Jelly-roll domain in Zinc finger protein ZPR1 › jr-ZPR1 0.56 47.0 4.05e-01 100.0% 78.2%
3593659 59.1.1.0 ↗ beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like 0.55 48.0 3.42e-01 100.0% 74.9%
3615273 59.1.1.1 ↗ beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like › RPC5 0.55 48.0 3.49e-01 100.0% 74.3%
3175293 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.55 46.0 3.79e-01 98.4% 82.5%
5053509 221.7.1.0 ↗ a+b two layers › beta-Grasp › E2-binding domain of E1 › E2-binding domain of E1 0.54 39.0 3.41e-01 98.4% 49.5%
3270169 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.52 39.0 3.55e-01 100.0% 60.0%
4178430 223.3.1.8 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase2 0.51 37.0 2.84e-01 77.4% 62.6%
3968712 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.51 38.0 3.61e-01 96.8% 65.0%
3352471 2484.1.1.15 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › GDA1_CD39 0.50 38.0 2.68e-01 91.9% 60.1%