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NC_015251.1__YP_004300915.1__ST65p076__00077

Bact-Vir

NC_015251.1__YP_004300915.1__ST65p076__00077

Identity

Accession:
NC_015251 ↗
Kingdom:
phage

Quality

77.2 mean pLDDT

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 4-75
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3n3fA01 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.76 45.0 5.58e-01 94.4% 100.0%
3hshE00 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.71 45.0 4.98e-01 91.7% 83.6%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.68 54.0 4.97e-01 93.1% 67.0%
3u4qA06 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.63 51.0 3.63e-01 88.9% 32.3%
4rcjA01 3.10.590.10 Alpha Beta › Roll › ph1033 like fold › ph1033 like domains 0.63 54.0 4.28e-01 94.4% 64.4%
3syyA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.63 52.0 3.84e-01 93.1% 37.6%
3ieyB00 3.40.1350.150 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.61 53.0 4.12e-01 94.4% 45.4%
4dunA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.60 53.0 4.42e-01 100.0% 74.0%
2znrA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.60 51.0 3.88e-01 98.6% 71.3%
3ijmA00 3.90.1570.20 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.59 53.0 4.21e-01 100.0% 56.2%
5anpA00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.59 52.0 4.18e-01 100.0% 71.7%
1ym5A01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.59 52.0 4.26e-01 100.0% 75.0%
3cwvA01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.58 49.0 3.70e-01 100.0% 41.9%
3npdA00 3.30.300.250 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.58 49.0 4.29e-01 95.8% 68.1%
3devA02 3.10.310.30 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.58 51.0 4.38e-01 100.0% 73.3%
2abqA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.58 50.0 3.29e-01 97.2% 33.8%
3nklB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.57 49.0 4.12e-01 95.8% 91.9%
1rznA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.57 50.0 3.96e-01 100.0% 59.3%
3g98A00 3.10.310.40 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.57 49.0 4.32e-01 100.0% 81.1%
3mazA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.56 41.0 3.72e-01 97.2% 56.6%
2zvfA02 3.10.310.40 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.56 45.0 4.05e-01 97.2% 61.3%
2w8mA00 3.40.1350.50 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › D212 PD-(D/E)XK nuclease, catalytic motif 0.56 49.0 3.80e-01 100.0% 60.6%
5dynA01 3.40.50.11970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 46.0 4.11e-01 93.1% 65.1%
1dfuP00 2.40.240.10 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Ribosomal Protein L25; Chain P 0.56 42.0 3.98e-01 86.1% 100.0%
1tuoA02 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.56 44.0 4.20e-01 86.1% 100.0%
2jc4A00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.56 49.0 3.37e-01 100.0% 55.1%
1s14B00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.55 47.0 3.63e-01 100.0% 49.4%
4p22A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 48.0 3.42e-01 98.6% 85.7%
3u7iA00 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.54 46.0 3.30e-01 94.4% 54.6%
1xmxA01 3.40.50.10770 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Hypothetical protein VC1899 like domain (Restriction endonuclease-like) 0.54 46.0 3.65e-01 93.1% 89.4%
1ob8A00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.54 46.0 4.01e-01 100.0% 85.7%
7ri3D01 3.90.175.10 Alpha Beta › Alpha-Beta Complex › Diphtheria Toxin; domain 1 › Diphtheria Toxin, domain 1 0.54 44.0 3.30e-01 94.4% 79.3%
3l4eA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.54 42.0 3.03e-01 84.7% 33.7%
2fgyA03 3.30.1330.140 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Carboxysome Shell Carbonic Anhydrase, C-terminal domain 0.53 43.0 3.76e-01 93.1% 94.9%
5t5sA01 3.10.310.40 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.52 46.0 3.83e-01 100.0% 75.2%
4gt8A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.52 41.0 3.49e-01 90.3% 57.1%
1aj6A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.52 43.0 3.31e-01 100.0% 52.6%
3fveA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.52 41.0 3.47e-01 100.0% 50.4%
3h78A02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.52 41.0 3.28e-01 88.9% 53.5%
4a0tA01 6.20.80.10 Special › Other non-globular › Glycosyl hydrolase fold › 0.51 31.0 3.36e-01 100.0% 72.1%
3upsA00 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.51 38.0 3.41e-01 83.3% 71.3%
2in3A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 31.0 3.00e-01 70.8% 51.9%
1w4bA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 42.0 2.98e-01 93.1% 66.8%
ECOD (63)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5079980 7512.1.1.0 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase 0.75 49.0 3.56e-01 88.9% 25.3%
1505155 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.70 45.0 4.94e-01 91.7% 82.1%
3623217 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.68 43.0 4.95e-01 100.0% 92.0%
5008297 2005.1.1.0 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.64 41.0 3.85e-01 91.7% 52.2%
3723542 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.64 51.0 4.25e-01 100.0% 50.4%
4994059 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.63 55.0 4.51e-01 100.0% 81.5%
5013306 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 53.0 4.20e-01 98.6% 67.7%
5012791 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 54.0 4.28e-01 100.0% 53.3%
5081359 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.61 55.0 4.14e-01 100.0% 67.6%
3623273 101.1.2.712 alpha arrays › HTH › HTH › winged helix domain › FNIP_C 0.60 55.0 3.65e-01 100.0% 64.7%
347593 9.1.1.19 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › MxiM 0.59 34.0 2.88e-01 100.0% 35.7%
4066113 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.59 52.0 4.41e-01 100.0% 75.6%
5036583 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.59 53.0 4.35e-01 100.0% 70.0%
3192612 2004.5.1.0 a/b three-layered sandwiches › P-loop domains-like › Differentially expressed in normal cells and neoplasia (DENN) domain › Differentially expressed in normal cells and neoplasia (DENN) domain 0.59 51.0 3.49e-01 94.4% 50.8%
4996288 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.59 51.0 4.22e-01 100.0% 81.5%
4217008 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.59 51.0 4.29e-01 100.0% 72.3%
3967702 286.1.1.2 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › PhzC-PhzF 0.59 52.0 4.34e-01 100.0% 82.4%
4419934 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.59 53.0 3.69e-01 100.0% 69.7%
4957146 225.1.1.3 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c 0.59 50.0 3.65e-01 100.0% 46.7%
4046575 286.1.1.2 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › PhzC-PhzF 0.58 52.0 4.46e-01 100.0% 80.0%
4116968 2492.1.1.18 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › Prok-JAB 0.58 50.0 4.05e-01 100.0% 75.3%
3470427 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.58 51.0 3.36e-01 100.0% 39.7%
5064558 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.58 51.0 3.20e-01 97.2% 24.3%
4206587 2007.1.2.47 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › DabA 0.58 52.0 3.90e-01 100.0% 73.7%
4174479 5104.1.1.0 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.57 51.0 4.37e-01 100.0% 73.0%
4618294 239.1.1.3 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.57 48.0 4.41e-01 95.8% 98.9%
4249757 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.56 49.0 4.40e-01 100.0% 88.6%
3222006 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.56 48.0 4.29e-01 93.1% 81.0%
3222477 101.1.2.712 alpha arrays › HTH › HTH › winged helix domain › FNIP_C 0.56 51.0 3.48e-01 100.0% 63.6%
3601617 2006.1.1.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.56 49.0 3.31e-01 100.0% 40.5%
4632068 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.56 49.0 3.44e-01 100.0% 53.8%
4147512 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.56 48.0 4.12e-01 100.0% 74.2%
3627662 2007.15.1.9 a/b three-layered sandwiches › Flavodoxin-like › N-deoxyribosyltransferase › N-deoxyribosyltransferase › MAP3K_TRAF_bd, DRHyd-ASK 0.55 39.0 2.96e-01 75.0% 30.6%
4107978 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.55 47.0 4.04e-01 100.0% 76.0%
4928196 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.55 49.0 4.15e-01 100.0% 77.5%
3614022 2006.1.1.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.55 48.0 3.29e-01 100.0% 31.4%
5051995 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.55 48.0 3.97e-01 100.0% 71.4%
4183753 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.55 48.0 3.33e-01 100.0% 51.4%
5010105 2008.1.1.3 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Hjc 0.54 46.0 3.96e-01 100.0% 61.6%
4622776 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.54 48.0 3.38e-01 100.0% 50.2%
3960379 286.1.1.0 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like 0.54 43.0 4.10e-01 100.0% 73.3%
4516622 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.54 47.0 3.33e-01 100.0% 59.6%
4279233 4126.1.1.6 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › DabA 0.54 46.0 3.20e-01 100.0% 45.9%
4637311 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.53 37.0 3.33e-01 72.2% 55.0%
4933955 7592.1.1.6 a/b three-layered sandwiches › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › Csa3_N 0.53 44.0 3.52e-01 93.1% 88.0%
4149106 2008.1.1.3 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Hjc 0.53 45.0 3.79e-01 100.0% 57.0%
3699229 6110.1.1.1 alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › DHC_N2 0.53 38.0 2.35e-01 76.4% 34.0%
3709300 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 41.0 2.38e-01 84.7% 45.2%
4027012 5104.1.1.0 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.53 45.0 3.87e-01 100.0% 78.4%
4990485 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.53 42.0 3.27e-01 91.7% 39.4%
3799250 5.1.5.105 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Beta-prop_IFT140_1st 0.52 41.0 2.59e-01 84.7% 94.9%
3696553 2004.5.1.0 a/b three-layered sandwiches › P-loop domains-like › Differentially expressed in normal cells and neoplasia (DENN) domain › Differentially expressed in normal cells and neoplasia (DENN) domain 0.52 46.0 3.50e-01 97.2% 53.9%
4556488 2485.1.1.69 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › DUF4174 0.52 39.0 3.28e-01 94.4% 44.4%
5075712 2484.1.1.55 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.52 46.0 3.47e-01 100.0% 65.7%
3678544 207.1.1.103 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_R13L1-DRL21 0.52 45.0 2.87e-01 100.0% 29.2%
4945830 2484.1.1.55 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.52 45.0 3.54e-01 100.0% 69.4%
5082297 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 45.0 3.50e-01 100.0% 67.3%
5058682 2004.1.1.162 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.51 44.0 3.12e-01 95.8% 63.6%
3589480 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.51 44.0 3.57e-01 98.6% 81.4%
4274433 2484.1.1.55 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.51 44.0 3.27e-01 100.0% 69.0%
4067863 2484.1.1.55 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.51 44.0 3.41e-01 100.0% 67.6%
4109302 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.50 42.0 3.75e-01 93.1% 73.3%
4092268 2484.1.1.55 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.50 44.0 3.35e-01 100.0% 68.6%