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NC_052663.1__YP_009987457.1__JR328_gp109__00248

Bact-Vir

NC_052663.1__YP_009987457.1__JR328_gp109__00248

Identity

Accession:
NC_052663 ↗
Kingdom:
phage

Quality

71.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Justusliebigvirus› Escherichia_phage_VEcB

TaxID: 2776821

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 2-75
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2g8sB00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.59 47.0 3.10e-01 90.5% 34.6%
2kcdA00 3.10.450.250 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › S. aureus uracil DNA glycosylase inhibitor 0.59 45.0 3.87e-01 83.8% 54.2%
3odtA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 48.0 3.21e-01 91.9% 28.0%
7k98B04 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.58 39.0 2.73e-01 70.3% 25.1%
2ckkA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.57 37.0 4.12e-01 74.3% 87.7%
1ne3A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 39.0 4.04e-01 70.3% 86.8%
2fp8B00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.56 44.0 2.93e-01 86.5% 45.2%
3wx1A00 2.170.150.20 Mainly Beta › Beta Complex › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A › Peptide methionine sulfoxide reductase. 0.54 39.0 3.51e-01 100.0% 53.7%
5t5lA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 39.0 2.79e-01 77.0% 52.4%
1u4cB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 44.0 2.86e-01 90.5% 25.8%
7uhyA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 43.0 2.86e-01 90.5% 31.0%
5dzeA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 42.0 3.07e-01 86.5% 48.7%
3eagA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.52 38.0 2.69e-01 77.0% 37.7%
4ri1C00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 44.0 3.42e-01 98.6% 97.1%
3qr8A01 2.40.50.230 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Gp5 N-terminal domain 0.51 36.0 3.49e-01 74.3% 82.1%
2ob0C01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 40.0 3.09e-01 83.8% 59.3%
6psyA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.51 43.0 3.18e-01 100.0% 61.7%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3620841 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 50.0 4.36e-01 89.2% 67.8%
4567015 1.1.8.3 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GCV_T_C 0.62 46.0 4.54e-01 83.8% 73.4%
3724237 7502.1.1.1 ↗ 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 › HGTP_anticodon 0.61 48.0 3.97e-01 85.1% 85.4%
3576152 267.1.1.0 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain 0.60 45.0 3.00e-01 82.4% 29.8%
3269927 9.4.1.0 ↗ beta barrels › Lipocalins/Streptavidin › D-aminopeptidase, middle and C-terminal domains › D-aminopeptidase, middle and C-terminal domains 0.59 52.0 4.64e-01 100.0% 82.4%
5034924 12.3.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.59 45.0 2.97e-01 83.8% 18.8%
4282601 2.1.1.84 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Prot_ATP_ID_OB_N 0.59 37.0 3.33e-01 100.0% 42.7%
3995515 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.59 47.0 3.19e-01 90.5% 33.1%
3738632 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 46.0 2.96e-01 87.8% 24.9%
4953339 4.6.1.2 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC 0.58 46.0 4.52e-01 89.2% 81.2%
3602725 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.58 37.0 3.88e-01 70.3% 70.0%
4931272 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.56 48.0 4.44e-01 94.6% 76.8%
4607938 3518.1.1.0 ↗ a+b two layers › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex 0.56 42.0 3.35e-01 78.4% 42.1%
3942586 2004.1.1.107 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DnaB_C 0.56 49.0 3.39e-01 98.6% 96.5%
3464137 4.1.1.152 ↗ beta barrels › SH3 › SH3 › SH3 › DUF1262 0.56 45.0 3.58e-01 91.9% 71.5%
4019606 220.1.1.63 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_NF1 0.56 44.0 3.91e-01 89.2% 67.8%
3508461 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.56 48.0 3.65e-01 100.0% 58.4%
3945426 5.1.3.22 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › GSDH 0.55 47.0 3.09e-01 100.0% 87.2%
5039031 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.55 45.0 4.02e-01 93.2% 67.3%
3595056 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.55 42.0 3.53e-01 85.1% 80.0%
3229763 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.54 47.0 3.32e-01 100.0% 60.0%
4001208 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.53 46.0 3.51e-01 100.0% 68.1%
4943586 243.6.1.12 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › PUA 0.53 41.0 4.07e-01 85.1% 86.3%
3358748 4.1.1.94 ↗ beta barrels › SH3 › SH3 › SH3 › SAWADEE 0.53 42.0 4.13e-01 86.5% 95.0%
3262589 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 37.0 3.27e-01 74.3% 71.7%
3653236 3347.1.1.0 ↗ beta meanders › Uncharacterized protein BF3112 › Uncharacterized protein BF3112 › Uncharacterized protein BF3112 0.53 43.0 3.39e-01 89.2% 98.1%
3569064 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.53 45.0 2.79e-01 100.0% 28.5%
5030807 169.1.1.1 ↗ alpha complex topology › Aldehyde ferredoxin oxidoreductase-C › Aldehyde ferredoxin oxidoreductase-C › Aldehyde ferredoxin oxidoreductase-C › AFOR_C 0.53 43.0 2.72e-01 91.9% 17.2%
3179646 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 45.0 2.80e-01 97.3% 82.8%
3830352 4.1.1.94 ↗ beta barrels › SH3 › SH3 › SH3 › SAWADEE 0.52 41.0 3.99e-01 86.5% 90.6%
3217731 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.52 38.0 3.07e-01 78.4% 74.7%
3390528 11.2.1.31 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DUF4788 0.51 39.0 3.27e-01 85.1% 84.3%
3728321 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.51 44.0 3.08e-01 100.0% 56.5%
3282683 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.50 43.0 3.27e-01 100.0% 57.9%
4930846 2.1.1.12 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S28e 0.50 37.0 3.97e-01 78.4% 96.7%