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NC_054969.1__YP_010079138.1__KMC57_gp08__00008

Bact-Vir

NC_054969.1__YP_010079138.1__KMC57_gp08__00008

Identity

Accession:
NC_054969 ↗
Kingdom:
phage

Quality

80.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Dongdastvirus› Achromobacter_phage_vB_AxyP_19-32_Axy24

TaxID: 2591048

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 23-111
PDB
Domain cluster: rep: OQ469755.1__WEV89103.1__FADCJLBI_00051__00051__D21-95
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dceA01 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 0.70 46.0 4.92e-01 71.9% 78.9%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.67 41.0 3.41e-01 79.8% 35.8%
3ejbH02 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.66 51.0 3.64e-01 82.0% 64.9%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 37.0 3.85e-01 95.5% 60.7%
1zvuA03 1.10.268.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 0.63 49.0 4.19e-01 83.1% 52.9%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 37.0 4.51e-01 100.0% 94.7%
2a0uB01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.61 54.0 4.47e-01 100.0% 88.1%
1w36F02 1.10.10.160 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 39.0 3.80e-01 98.9% 58.0%
2hytA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.61 51.0 4.07e-01 96.6% 58.5%
1gvnA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.59 36.0 3.70e-01 96.6% 62.1%
1txuA01 1.10.246.120 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.59 40.0 4.00e-01 70.8% 78.7%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.59 37.0 3.81e-01 100.0% 65.5%
2w3qA02 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.58 52.0 4.26e-01 100.0% 75.6%
3q23A08 1.20.140.110 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.58 40.0 3.37e-01 100.0% 41.6%
5oklA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.58 43.0 4.18e-01 80.9% 75.2%
1vctA01 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 0.57 38.0 3.57e-01 98.9% 55.0%
2gnoA03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.56 40.0 3.86e-01 73.0% 99.0%
1svmA01 1.10.10.510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain 0.56 42.0 4.27e-01 97.8% 83.3%
2lrmA00 1.10.890.30 Mainly Alpha › Orthogonal Bundle › 10k-s Protein, Hypothetical Protein A; Chain A › YmgD protein 0.56 40.0 4.15e-01 75.3% 92.9%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.55 37.0 3.86e-01 100.0% 72.9%
1sgmA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 47.0 3.84e-01 100.0% 60.3%
7cj3A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.55 45.0 3.41e-01 96.6% 76.4%
2janA02 1.10.240.10 Mainly Alpha › Orthogonal Bundle › Tyrosyl-Transfer RNA Synthetase › Tyrosyl-Transfer RNA Synthetase 0.55 37.0 3.58e-01 98.9% 61.4%
2qkwA00 1.20.1270.140 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AvrPto 0.55 36.0 3.54e-01 100.0% 60.4%
3fiwA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 45.0 4.10e-01 89.9% 82.9%
1cpcA00 1.10.490.20 Mainly Alpha › Orthogonal Bundle › Globin-like › Phycocyanins 0.54 37.0 3.15e-01 71.9% 43.8%
3q2qA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.54 48.0 3.32e-01 100.0% 36.9%
3llkA02 1.20.120.310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain 0.54 46.0 3.99e-01 95.5% 62.2%
5j1hA01 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 37.0 2.97e-01 70.8% 51.6%
1wn0A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.54 44.0 3.91e-01 89.9% 77.1%
2hkuB00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 44.0 3.67e-01 98.9% 60.0%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.53 38.0 3.51e-01 100.0% 57.6%
1ykhA00 6.10.140.200 Special › Helix non-globular › Helix Hairpins › 0.53 37.0 3.66e-01 97.8% 68.4%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.53 30.0 3.51e-01 88.8% 82.0%
2ip6A00 1.20.1440.140 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.53 36.0 3.67e-01 80.9% 72.4%
2x6hA03 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.52 45.0 3.53e-01 100.0% 43.5%
1jr3C02 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.52 40.0 3.69e-01 85.4% 86.1%
2o7gA00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.52 38.0 3.83e-01 77.5% 95.5%
3v5uA01 6.10.280.80 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NCX, peripheral helical region 0.51 40.0 4.32e-01 100.0% 98.7%
1dqeA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.51 43.0 3.81e-01 96.6% 92.0%
2p0tA01 1.10.60.30 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › PSPTO4464-like domains 0.51 33.0 3.48e-01 87.6% 76.3%
4lwsA00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.51 42.0 4.05e-01 100.0% 79.0%
3ay5A01 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.50 46.0 3.99e-01 100.0% 82.7%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5029464 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.78 43.0 4.59e-01 100.0% 61.3%
3676147 198.1.1.1 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2 0.75 61.0 6.41e-01 87.6% 97.5%
3248091 198.1.1.2 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.73 59.0 6.08e-01 88.8% 96.5%
5029573 3718.1.1.0 ↗ alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT 0.71 50.0 4.80e-01 97.8% 64.0%
3924079 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.70 57.0 5.83e-01 87.6% 91.8%
3216082 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.70 39.0 3.57e-01 98.9% 42.6%
5078313 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.70 48.0 3.67e-01 71.9% 38.0%
4989360 310.2.1.84 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › HAMP 0.69 44.0 3.87e-01 100.0% 44.6%
5019837 2003.1.1.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH 0.68 43.0 3.07e-01 100.0% 22.0%
None — 0.68 43.0 3.07e-01 100.0% 22.0%
3474097 197.1.1.1 ↗ alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › FERM_M 0.67 51.0 4.66e-01 80.9% 69.6%
3839909 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.66 52.0 3.80e-01 86.5% 45.3%
3888162 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.64 41.0 3.72e-01 100.0% 48.3%
3985018 101.35.1.24 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › DUF1451 0.64 47.0 4.53e-01 78.7% 83.8%
3183219 5069.1.1.4 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Ferric_reduct 0.63 51.0 3.64e-01 87.6% 90.0%
3675794 109.4.1.1556 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cohesin_HEAT, PDS5 0.62 43.0 2.79e-01 71.9% 24.1%
5074065 632.11.1.18 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › DUF5658 0.61 43.0 4.21e-01 100.0% 67.3%
4169745 4044.1.1.0 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.61 34.0 3.75e-01 94.4% 66.7%
3713780 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.60 39.0 3.51e-01 97.8% 47.2%
3866648 174.1.1.43 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › CD20 0.60 42.0 3.42e-01 100.0% 40.0%
4378877 3711.1.1.20 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DUF444 0.60 37.0 3.98e-01 100.0% 72.0%
3229793 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.60 41.0 4.24e-01 100.0% 74.1%
4297295 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 0.60 35.0 3.78e-01 95.5% 68.0%
3932694 604.5.1.0 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.59 42.0 4.01e-01 97.8% 64.0%
3602 632.6.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Epsilon_antitox 0.59 36.0 3.70e-01 96.6% 62.1%
3390728 601.19.1.47 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › DUF4745 0.59 41.0 3.69e-01 100.0% 52.0%
4033890 604.39.1.15 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › DUF2232 0.58 48.0 4.05e-01 92.1% 76.8%
3545387 3602.1.1.0 ↗ alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain 0.57 39.0 3.63e-01 100.0% 56.4%
3482114 9001.1.1.1 ↗ alpha bundles › TMEM120/ELO/TLC › TMEM120/ELO/TLC › TMEM120/ELO/TLC › TRAM_LAG1_CLN8 0.57 41.0 3.09e-01 75.3% 78.7%
3247132 2007.2.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II 0.57 47.0 3.70e-01 88.8% 50.0%
3787103 1203.1.2.0 ↗ alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.56 44.0 3.76e-01 100.0% 52.9%
3274332 604.5.1.0 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.56 41.0 2.87e-01 78.7% 91.9%
3477521 3456.1.1.3 ↗ extended segments › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › OPA1_C 0.56 39.0 3.50e-01 73.0% 97.7%
4473674 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.55 39.0 3.64e-01 100.0% 59.1%
3601490 3922.1.1.0 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.55 46.0 3.91e-01 89.9% 72.4%
4034213 632.2.1.5 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › DUF1542 0.55 37.0 3.96e-01 95.5% 77.5%
3945179 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.55 48.0 3.66e-01 96.6% 82.8%
3961148 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.55 42.0 3.83e-01 100.0% 60.8%
3915878 3922.1.1.65 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › PLC-beta_C 0.54 43.0 3.16e-01 100.0% 34.4%
3682306 633.23.1.32 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › CASP_dom 0.53 43.0 3.49e-01 100.0% 46.7%
5045855 604.5.1.1 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU_div 0.53 46.0 3.51e-01 98.9% 92.3%
3476601 5054.1.1.17 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › TRAM_LAG1_CLN8 0.53 45.0 3.32e-01 93.3% 57.9%
3241365 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.52 43.0 3.52e-01 100.0% 49.4%
4941675 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.52 43.0 2.66e-01 100.0% 16.3%
3589446 2004.1.1.301 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_27 0.52 42.0 2.64e-01 98.9% 16.4%
4007580 3755.3.1.15 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › MscS_porin 0.51 41.0 3.08e-01 100.0% 34.7%
3428894 604.5.1.39 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PF26581 0.51 41.0 3.56e-01 100.0% 55.7%
4825592 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.51 36.0 2.97e-01 73.0% 66.9%
3404270 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.51 44.0 3.89e-01 100.0% 65.4%