SMTL ID : 4p33.1 (2 other biounits)

Crystal structure of E. coli LptB-E163Q in complex with ATP-sodium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: T.42, Q.84, Q.162 Ligands: ATP.2 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.84, A:Q.162 Water bridges: B:G.139 NA.6: 4 residues within 4Å: Chain B: T.42, Q.84, Q.162 Ligands: ATP.7 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: B:T.42, B:Q.84, B:Q.162 Water bridges: A:G.139

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.2: 20 residues within 4Å: Chain A: Y.12, R.15, V.17, P.36, N.37, G.38, A.39, G.40, K.41, T.42, T.43, Q.84, Q.162, H.194 Chain B: S.136, S.138, G.139, G.140, E.141 Ligands: NA.1 29 PLIP interactions: 23 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:R.15, A:R.15, A:N.37, A:G.38, A:G.38, A:A.39, A:G.40, A:G.40, A:K.41, A:T.42, A:T.43, A:T.43, A:Q.84, B:S.138, B:S.138, B:G.139, B:G.140, B:E.141, B:E.141 pi-Stacking: A:Y.12, A:Y.12 Salt bridges: A:K.41, A:K.41, A:H.194 Water bridges: A:Y.12, A:T.42, A:T.42, A:Q.84, A:Q.162 ATP.7: 20 residues within 4Å: Chain A: S.136, S.138, G.139, G.140, E.141 Chain B: Y.12, R.15, V.17, P.36, N.37, G.38, A.39, G.40, K.41, T.42, T.43, Q.84, Q.162, H.194 Ligands: NA.6 26 PLIP interactions: 6 interactions with chain A, 20 interactions with chain B Hydrogen bonds: A:S.138, A:S.138, A:G.139, A:G.140, A:E.141, A:E.141, B:R.15, B:R.15, B:N.37, B:G.38, B:G.38, B:A.39, B:G.40, B:G.40, B:K.41, B:T.42, B:T.42, B:T.43, B:Q.84 pi-Stacking: B:Y.12, B:Y.12 Salt bridges: B:K.41, B:K.41, B:H.194 Water bridges: B:Q.84, B:H.194

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 1 residues within 4Å: Chain A: R.91 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.91, A:R.91 GOL.4: 5 residues within 4Å: Chain A: R.91, L.92, S.93, D.96, M.133 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.93 GOL.5: 6 residues within 4Å: Chain A: Y.81, P.83, S.87, E.146, R.149, A.150 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.146, A:R.149 GOL.8: 1 residues within 4Å: Chain B: R.91 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.91, B:R.91 GOL.9: 5 residues within 4Å: Chain B: R.91, L.92, S.93, D.96, M.133 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.93, B:D.96 GOL.10: 6 residues within 4Å: Chain B: Y.81, P.83, S.87, E.146, R.149, A.150 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.146, B:R.149

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Sherman, D.J. et al., Decoupling catalytic activity from biological function of the ATPase that powers lipopolysaccharide transport. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-03-26

Peptides

Lipopolysaccharide export system ATP-binding protein LptB: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Lipopolysaccharide export system ATP-binding protein LptB

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