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NC_054464.1__YP_010052850.1__KE334_gp39__00039

Bact-Vir

NC_054464.1__YP_010052850.1__KE334_gp39__00039

Identity

Accession:
NC_054464 ↗
Kingdom:
phage

Quality

82.9 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 2-64
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13269.12 best DUF4060 57.1 2.40e-15 98.4% 82.4%
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2retA00 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.78 64.0 5.77e-01 88.9% 69.0%
7z0sE02 1.10.645.10 Mainly Alpha › Orthogonal Bundle › Cytochrome-c3 Hydrogenase; chain B › Cytochrome-c3 Hydrogenase, chain B 0.68 59.0 3.80e-01 100.0% 85.2%
3hi2B00 3.30.2310.40 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › 0.66 59.0 5.13e-01 100.0% 77.3%
1bf5A04 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.66 45.0 3.79e-01 73.0% 45.1%
3bjeA01 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.64 46.0 2.91e-01 76.2% 60.9%
5cw7B00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.63 55.0 4.83e-01 100.0% 87.2%
3nybA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.62 44.0 3.72e-01 74.6% 92.7%
1zhhB01 3.30.450.220 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › LuxQ periplasmic domain, N-terminal subdomain 0.62 54.0 4.10e-01 100.0% 47.8%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.61 43.0 3.03e-01 74.6% 58.3%
1imuA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.61 46.0 3.91e-01 82.5% 75.7%
2ia1A01 3.30.500.20 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › BH3703-like domains 0.61 48.0 3.98e-01 88.9% 93.3%
4ku4A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 39.0 2.86e-01 96.8% 25.1%
6iw6A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.59 45.0 3.84e-01 84.1% 95.4%
6g1yA02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.58 48.0 4.03e-01 100.0% 65.8%
1f5aA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.57 46.0 3.46e-01 87.3% 94.9%
3kzwA01 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.56 47.0 3.65e-01 100.0% 84.8%
2bbhA01 3.30.460.20 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › CorA soluble domain-like 0.56 53.0 3.85e-01 100.0% 52.3%
4tyzA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 35.0 2.91e-01 93.7% 36.7%
1cjxB02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.56 46.0 3.20e-01 100.0% 28.2%
6wo0A01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.56 45.0 3.29e-01 98.4% 57.3%
2rqlA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.55 42.0 3.76e-01 85.7% 89.5%
2kxgA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 47.0 4.18e-01 98.4% 70.5%
3cwvA02 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.54 45.0 3.42e-01 93.7% 86.8%
6u8yK01 3.30.460.80 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › NADH:ubiquinone oxidoreductase Nqo5 subunit 0.54 46.0 3.41e-01 100.0% 38.3%
4iq0C02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 40.0 3.07e-01 90.5% 82.3%
3e82E02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 39.0 2.83e-01 82.5% 78.0%
1rtqA00 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.53 44.0 2.90e-01 92.1% 39.2%
1cx8A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.52 43.0 2.79e-01 92.1% 37.1%
1dleB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 39.0 3.21e-01 88.9% 98.6%
4hc5D00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 38.0 3.04e-01 100.0% 38.9%
2qh0A00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 39.0 3.14e-01 100.0% 41.1%
7b1xA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 40.0 2.62e-01 85.7% 35.9%
1ivyB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 39.0 2.37e-01 82.5% 11.6%
4l0mA00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.51 42.0 3.00e-01 100.0% 94.5%
2mcfA00 3.40.50.11630 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 39.0 3.07e-01 87.3% 90.5%
6kd0A01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 40.0 2.59e-01 88.9% 36.2%
3cm1A00 2.30.31.20 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Sporulation-specific cell division protein SsgB 0.50 43.0 3.27e-01 92.1% 64.7%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3700781 3794.1.1.0 a+b two layers › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Barrel domain in methylcrotonyl-CoA carboxylase alpha-subunit 0.78 63.0 4.91e-01 87.3% 46.2%
3201338 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.72 65.0 4.37e-01 100.0% 74.9%
None 0.71 56.0 3.83e-01 85.7% 68.6%
3889979 913.1.1.0 few secondary structure elements › Hormone receptor domain (HRM, Pfam 02793) › Hormone receptor domain (HRM, Pfam 02793) › Hormone receptor domain (HRM, Pfam 02793) 0.71 46.0 4.88e-01 74.6% 76.4%
3933294 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.71 47.0 3.94e-01 73.0% 41.0%
4041054 304.135.1.1 a+b two layers › Alpha-beta plaits › O-phosphoseryl-tRNA synthetase C-terminal domain › O-phosphoseryl-tRNA synthetase C-terminal domain › SepRS_C 0.71 48.0 3.41e-01 71.4% 88.4%
3240191 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.71 49.0 3.92e-01 73.0% 36.8%
3509348 214.1.1.15 a+b two layers › SH2 › SH2 › SH2 › DUF7063, DUF7145 0.70 48.0 3.05e-01 73.0% 15.0%
4945424 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.69 60.0 4.81e-01 100.0% 56.2%
4353676 223.1.1.41 a+b three layers › Profilin-like › sensor domains › sensor domains › HisK_sensor 0.68 59.0 4.61e-01 96.8% 68.9%
3344476 223.2.1.33 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.68 59.0 4.68e-01 100.0% 74.1%
4379531 223.1.1.41 a+b three layers › Profilin-like › sensor domains › sensor domains › HisK_sensor 0.67 59.0 4.19e-01 100.0% 48.7%
4463632 4312.1.1.3 a+b two layers › RelE-like › RelE-like › RelE-like › ParE_toxin 0.67 58.0 5.22e-01 100.0% 92.2%
3248029 223.7.1.1 a+b three layers › Profilin-like › FLJ32549 C-terminal domain-like › FLJ32549 C-terminal domain-like › C12orf66_like 0.66 58.0 4.47e-01 100.0% 66.2%
3245433 207.1.1.52 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FBA_2 0.65 45.0 2.80e-01 100.0% 14.6%
4992633 4312.1.1.15 a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.65 58.0 5.50e-01 100.0% 90.7%
3271052 316.1.1.36 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.65 50.0 3.86e-01 84.1% 79.3%
3619626 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.65 44.0 3.84e-01 77.8% 46.3%
4997576 223.1.1.27 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_10 0.65 57.0 4.77e-01 100.0% 80.0%
3715846 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.65 58.0 4.36e-01 100.0% 74.7%
4926836 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.64 56.0 4.52e-01 100.0% 57.6%
4943859 2011.2.1.1 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › PNP_UDP_1 0.64 44.0 2.86e-01 100.0% 17.2%
4994079 4312.1.1.0 a+b two layers › RelE-like › RelE-like › RelE-like 0.63 55.0 5.25e-01 100.0% 94.7%
4544637 4312.1.1.3 a+b two layers › RelE-like › RelE-like › RelE-like › ParE_toxin 0.63 54.0 4.83e-01 100.0% 89.2%
5029970 4312.1.1.0 a+b two layers › RelE-like › RelE-like › RelE-like 0.63 55.0 4.79e-01 100.0% 74.7%
5047444 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.62 54.0 4.29e-01 100.0% 58.5%
4066540 223.1.1.134 a+b three layers › Profilin-like › sensor domains › sensor domains › PF30516 0.62 54.0 3.90e-01 100.0% 37.9%
4993636 4312.1.1.15 a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.61 53.0 5.20e-01 100.0% 95.7%
4928586 896.1.1.0 a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.61 47.0 4.89e-01 100.0% 87.9%
3646024 3887.2.1.1 a+b two layers › Yeast killer toxin-like › Antifungal protein ginkbilobin-2 › Antifungal protein ginkbilobin-2 › Stress-antifung 0.61 49.0 4.22e-01 95.2% 93.6%
4668983 4051.1.1.0 a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz 0.60 42.0 3.10e-01 73.0% 78.1%
2832769 4312.1.1.4 a+b two layers › RelE-like › RelE-like › RelE-like › Gp49 0.60 50.0 4.19e-01 100.0% 67.8%
3477796 59.1.3.5 beta complex topology › triple barrel › triple barrel › RNA polymerase I subunits A49/A34.5 dimerization domains › ELL 0.58 52.0 4.61e-01 100.0% 94.4%
3561487 223.1.1.108 a+b three layers › Profilin-like › sensor domains › sensor domains › VGCC_alpha2, PF30670 0.58 49.0 2.97e-01 100.0% 14.4%
4465859 316.1.1.30 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › PAP_NTPase 0.58 46.0 3.40e-01 87.3% 87.1%
4603150 316.1.1.26 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › SMODS 0.58 44.0 3.22e-01 84.1% 85.3%
3943423 211.1.1.1 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase 0.57 45.0 4.60e-01 100.0% 88.3%
3567876 316.1.1.20 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › OAS1_C 0.57 43.0 3.21e-01 84.1% 88.9%
3401089 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.57 45.0 3.58e-01 85.7% 41.5%
3652916 2004.1.1.16 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.57 35.0 2.54e-01 98.4% 20.0%
3941356 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.56 46.0 3.70e-01 88.9% 64.2%
3998296 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.56 47.0 4.24e-01 95.2% 93.3%
3259937 226.1.1.1 a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.56 48.0 3.83e-01 100.0% 52.6%
3760297 211.1.1.37 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Teneurin_ABD 0.56 51.0 4.07e-01 100.0% 53.3%
3606814 896.1.1.0 a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.55 44.0 4.10e-01 100.0% 70.5%
3276465 316.1.1.36 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.55 40.0 2.90e-01 81.0% 56.6%
5054107 4121.1.1.1 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.54 50.0 3.27e-01 100.0% 32.7%
3505062 226.1.1.1 a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.54 47.0 3.64e-01 100.0% 52.4%
4941364 330.2.1.0 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.53 39.0 3.34e-01 79.4% 75.2%
1030945 2008.1.1.34 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Card1_endonuc 0.53 39.0 3.02e-01 77.8% 97.8%
5038529 284.4.1.0 a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain 0.53 46.0 4.58e-01 100.0% 93.8%
3714806 4121.1.1.1 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.52 48.0 3.05e-01 100.0% 30.7%
4971784 896.1.1.0 a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.52 41.0 3.78e-01 100.0% 66.3%
4181802 7541.1.1.1 a/b three-layered sandwiches › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins › MoCF_biosynth 0.51 43.0 3.25e-01 100.0% 41.1%
4947114 298.1.1.0 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.51 40.0 3.03e-01 88.9% 78.8%
1088703 2011.2.1.1 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › PNP_UDP_1 0.51 42.0 3.00e-01 100.0% 94.5%
4466130 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.51 40.0 2.94e-01 100.0% 31.4%
3404903 5001.1.1.0 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.50 42.0 2.95e-01 92.1% 76.4%
3228714 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.50 38.0 2.97e-01 87.3% 80.0%
5071917 2004.1.1.16 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.50 39.0 2.93e-01 100.0% 33.8%