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NC_055737.1__YP_010093629.1__KNT81_gp092__00092

Bact-Vir

NC_055737.1__YP_010093629.1__KNT81_gp092__00092

Identity

Accession:
NC_055737 ↗
Kingdom:
phage

Quality

91.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Bragavirus› Proteus_phage_phiP4-3

TaxID: 2065203

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 1-44
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dx6A00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.86 74.0 5.04e-01 100.0% 31.0%
2acfB00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.78 60.0 4.01e-01 100.0% 22.0%
1d2kA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.61 49.0 3.03e-01 100.0% 17.3%
3lfjB00 3.40.35.10 Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component 0.61 45.0 3.20e-01 100.0% 24.1%
3g1wA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.60 42.0 3.06e-01 79.5% 45.2%
1qo2A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.59 48.0 3.12e-01 100.0% 18.3%
4w5uB01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.59 45.0 2.79e-01 100.0% 13.3%
1bleA00 3.40.35.10 Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component 0.59 46.0 3.30e-01 100.0% 26.7%
6twjA01 3.40.350.10 Alpha Beta › 3-Layer(aba) Sandwich › Creatine Amidinohydrolase; Chain A, domain 1 › Creatinase/prolidase N-terminal domain 0.58 43.0 3.07e-01 100.0% 24.7%
1ylqA00 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.58 48.0 3.90e-01 100.0% 77.4%
3p12A01 3.40.1650.10 Alpha Beta › 3-Layer(aba) Sandwich › RbsD-like fold › RbsD-like domain 0.58 46.0 3.51e-01 100.0% 91.1%
2vepA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.57 44.0 2.91e-01 100.0% 18.3%
3clmA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.56 45.0 2.74e-01 100.0% 15.6%
2qsxA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.56 38.0 3.15e-01 75.0% 35.1%
3fzvA03 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.55 39.0 3.11e-01 100.0% 34.0%
1wpqA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 43.0 2.96e-01 100.0% 92.1%
5dmhB02 3.40.980.20 Alpha Beta › 3-Layer(aba) Sandwich › Molybdenum Cofactor Biosythetic Enzyme; Chain A › Four-carbon acid sugar kinase, nucleotide binding domain 0.55 42.0 3.03e-01 100.0% 58.9%
4isyA02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.54 43.0 2.79e-01 100.0% 17.8%
1qz9A02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.54 44.0 2.77e-01 100.0% 16.5%
2bn4A01 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.54 39.0 2.75e-01 84.1% 73.3%
1kfwA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.53 41.0 2.51e-01 100.0% 24.2%
3gxhA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.53 40.0 2.91e-01 100.0% 26.3%
5odqB01 1.20.1050.140 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.52 35.0 2.65e-01 72.7% 27.5%
2ynmD02 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.51 37.0 2.88e-01 81.8% 32.5%
2jacA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 34.0 2.64e-01 70.5% 28.7%
3kzqA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 37.0 2.53e-01 88.6% 52.4%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4041542 2005.1.1.13 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CTP_transf_like 0.59 47.0 3.50e-01 100.0% 35.0%
3293362 2002.1.1.43 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › His_biosynth 0.59 45.0 3.36e-01 100.0% 29.7%
3948249 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 45.0 2.93e-01 100.0% 49.0%
4111152 563.1.1.1 ↗ alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP 0.56 40.0 2.86e-01 86.4% 47.4%
4087124 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.55 45.0 2.96e-01 100.0% 20.0%
3798571 2484.1.1.48 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MutS_II 0.54 42.0 2.97e-01 100.0% 23.9%
5037046 65.1.1.0 ↗ beta sandwiches › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases 0.54 36.0 2.86e-01 79.5% 26.6%
4422846 2007.1.14.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like › Oxidored_nitro 0.53 38.0 2.89e-01 88.6% 77.9%
3355387 563.1.1.1 ↗ alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP 0.53 39.0 2.98e-01 90.9% 52.6%
3893289 7516.1.1.115 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Exostosin_GT47 0.53 41.0 3.04e-01 100.0% 29.7%
3992095 2006.1.6.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.53 41.0 2.91e-01 100.0% 25.6%
1806508 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.52 38.0 3.76e-01 81.8% 74.0%
3962317 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 40.0 2.52e-01 100.0% 14.4%
4957581 327.11.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) 0.52 42.0 3.66e-01 100.0% 94.9%
3976344 7523.1.1.17 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › OpuAC 0.51 40.0 3.21e-01 100.0% 40.0%
5040699 3008.1.1.0 ↗ a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.51 42.0 3.49e-01 100.0% 55.6%
4998715 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 41.0 2.94e-01 100.0% 29.0%
3202290 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 40.0 3.42e-01 100.0% 50.6%
1196959 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.51 37.0 3.33e-01 84.1% 56.5%