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NC_007924.1__YP_529892.1__X__00057

Bact-Vir

NC_007924.1__YP_529892.1__X__00057

Identity

Accession:
NC_007924 ↗
Kingdom:
phage

Quality

81.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Lactobacillus_phage_KC5a

TaxID: 363555

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 6-49
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2xf5B00 1.10.10.1530 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.82 67.0 6.51e-01 97.7% 82.0%
6hrdA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.79 57.0 3.70e-01 79.5% 17.8%
1ug3A02 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.76 51.0 3.62e-01 70.5% 25.8%
7xcnM01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.72 53.0 4.44e-01 81.8% 82.1%
4qlxB00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.70 52.0 3.28e-01 79.5% 24.8%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.69 58.0 4.91e-01 100.0% 83.5%
4kjmA02 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.69 47.0 4.48e-01 81.8% 58.2%
3ttvA02 1.20.1370.20 Mainly Alpha › Up-down Bundle › Hemocyanin, N-terminal domain › Catalase, four-helical domain 0.68 56.0 4.40e-01 100.0% 43.3%
2ld7B00 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.67 57.0 4.88e-01 100.0% 65.3%
2raaA00 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.67 53.0 3.63e-01 97.7% 87.6%
3gfaA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.66 48.0 3.14e-01 79.5% 26.0%
1vbgA04 1.10.189.10 Mainly Alpha › Orthogonal Bundle › Pyruvate Phosphate di-kinase; domain 2 › Pyruvate Phosphate Dikinase, domain 2 0.64 53.0 4.75e-01 93.2% 93.7%
3eujB00 1.10.225.40 Mainly Alpha › Orthogonal Bundle › NK-Lysin › MukF, C-terminal domain 0.64 51.0 4.24e-01 100.0% 57.8%
3o8oF01 3.40.50.450 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.63 50.0 3.22e-01 93.2% 41.8%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.62 49.0 4.52e-01 95.5% 79.4%
3ne5B04 6.10.140.730 Special › Helix non-globular › Helix Hairpins › 0.60 50.0 4.89e-01 100.0% 86.3%
4n1aB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 50.0 3.06e-01 100.0% 71.8%
4eqqA02 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 0.59 46.0 4.59e-01 97.7% 91.7%
2btqB03 1.10.287.600 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.59 44.0 4.23e-01 88.6% 88.7%
2a6cA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.57 45.0 3.79e-01 88.6% 51.3%
3cnhB02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.54 41.0 3.75e-01 93.2% 69.1%
4yyfA00 3.20.20.300 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycoside hydrolase, family 3, N-terminal domain 0.54 41.0 2.58e-01 100.0% 20.8%
3gwbA01 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.52 38.0 2.68e-01 97.7% 66.2%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588564 3151.1.1.2 ↗ alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › Phage_XkdX 0.89 68.0 7.11e-01 84.1% 92.5%
4032841 3151.1.1.2 ↗ alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › Phage_XkdX 0.86 69.0 6.89e-01 93.2% 86.7%
397561 3151.1.1.1 ↗ alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1_GP23-1 0.82 67.0 6.51e-01 97.7% 82.0%
4381851 3151.1.1.2 ↗ alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › Phage_XkdX 0.82 68.0 6.76e-01 100.0% 91.1%
4306757 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.76 56.0 4.21e-01 84.1% 33.3%
3761218 101.28.1.0 ↗ alpha arrays › HTH › helical bundles in FlhC-like proteins › helical bundles in FlhC-like proteins 0.74 57.0 5.69e-01 100.0% 84.4%
3244407 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.69 56.0 5.24e-01 100.0% 78.3%
3890108 3919.1.1.2 ↗ alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.68 56.0 4.29e-01 97.7% 40.0%
143586 509.1.1.1 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.67 57.0 4.88e-01 100.0% 65.3%
3730259 509.1.1.1 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.66 56.0 5.01e-01 100.0% 73.8%
134094 304.103.1.1 ↗ a+b two layers › Alpha-beta plaits › FMN-dependent nitroreductase-like › FMN-dependent nitroreductase-like › Nitroreductase 0.66 48.0 3.14e-01 79.5% 25.9%
4167193 101.35.1.1 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH2 0.61 44.0 4.48e-01 88.6% 86.7%
3513576 101.1.1.76 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.57 46.0 4.36e-01 97.7% 80.0%
3252236 101.1.1.76 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.56 44.0 4.25e-01 100.0% 87.3%