SMTL ID : 4e8y.1 (1 other biounit)

Crystal Structure of Burkholderia cenocepacia HldA in Complex with an ATP-competitive Inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x IHA: {[2-({[5-(2,6-dimethoxyphenyl)-1,2,4-triazin-3-yl]amino}methyl)-1,3-benzothiazol-5-yl]oxy}acetic acid(Non-covalent)

IHA.1: 18 residues within 4Å: Chain A: N.238, T.274, R.275, S.276, E.277, G.279, A.293, L.294, A.295, V.298, V.301, A.304, G.305, V.308, N.330, A.333, G.334, V.337 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:A.304, A:V.308 Hydrogen bonds: A:N.238, A:T.274, A:R.275, A:S.276, A:L.294, A:A.295, A:N.330 Water bridges: A:R.239, A:N.330 IHA.5: 18 residues within 4Å: Chain B: N.238, T.274, R.275, S.276, E.277, G.279, A.293, L.294, A.295, V.298, V.301, A.304, G.305, V.308, N.330, A.333, G.334, V.337 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:A.304, B:V.308 Hydrogen bonds: B:N.238, B:T.274, B:R.275, B:S.276, B:L.294, B:A.295, B:N.330 Water bridges: B:R.239, B:N.330

2 x M7B: 7-O-phosphono-D-glycero-beta-D-manno-heptopyranose(Non-covalent)

M7B.2: 12 residues within 4Å: Chain A: M.63, D.65, G.94, G.95, K.149, R.151, R.161, Y.195, K.197, K.222, D.306 Chain B: R.74 12 PLIP interactions: 1 interactions with chain B, 11 interactions with chain A Salt bridges: B:R.74, A:K.149, A:R.161, A:K.197, A:K.222 Hydrogen bonds: A:D.65, A:G.95, A:R.151, A:R.151, A:R.161, A:Y.195, A:G.303 M7B.6: 12 residues within 4Å: Chain A: R.74 Chain B: M.63, D.65, G.94, G.95, K.149, R.151, R.161, Y.195, K.197, K.222, D.306 13 PLIP interactions: 12 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.65, B:G.95, B:R.151, B:R.151, B:R.161, B:Y.195, B:Y.195, B:G.303 Salt bridges: B:K.149, B:R.161, B:K.197, B:K.222, A:R.74

2 x K: POTASSIUM ION(Non-covalent)

K.3: 5 residues within 4Å: Chain A: D.300, S.302, V.336, K.339, G.341 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.300, A:V.336, A:K.339, A:G.341 K.7: 5 residues within 4Å: Chain B: D.300, S.302, V.336, K.339, G.341 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.300, B:V.336, B:K.339, B:G.341

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: L.93, R.101 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain B: L.93, R.101 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, T.W. et al., Structural-functional studies of Burkholderia cenocepacia D-glycero-beta-D-manno-heptose 7-phosphate kinase (HldA) and characterization of inhibitors with antibiotic adjuvant and antivirulence properties. J.Med.Chem. (2013)

Release Date

2012-12-26

Peptides

D-beta-D-heptose 7-phosphate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

D-beta-D-heptose 7-phosphate kinase

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