SMTL ID : 5wly.2 (1 other biounit)

E. coli LpxH- 8 mutations

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: D.8, D.41, N.79, H.114, H.195 Ligands: MN.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.41, A:H.114, A:H.195, H2O.1 MN.2: 7 residues within 4Å: Chain A: D.8, H.10, D.41, H.114, H.195, H.197 Ligands: MN.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.8, A:H.10, A:D.41, A:H.197, H2O.1 MN.6: 6 residues within 4Å: Chain B: D.8, D.41, N.79, H.114, H.195 Ligands: MN.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.41, B:H.114, B:H.195, H2O.7 MN.7: 7 residues within 4Å: Chain B: D.8, H.10, D.41, H.114, H.195, H.197 Ligands: MN.6 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.8, B:H.10, B:D.41, B:H.197, H2O.7

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

CL.3: 4 residues within 4Å: Chain A: N.79, R.80, R.155 Chain B: I.47 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain A: I.47 Chain B: N.79, R.80, R.155 Ligand excluded by PLIP

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 3 residues within 4Å: Chain A: W.190, V.201, V.233 No protein-ligand interaction detected (PLIP) FMT.9: 3 residues within 4Å: Chain B: W.190, V.201, V.233 No protein-ligand interaction detected (PLIP)

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 5 residues within 4Å: Chain A: A.45, N.53, H.56 Chain B: E.44, A.45 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:R.80, A:A.45 Hydrogen bonds: A:N.53 EDO.10: 5 residues within 4Å: Chain A: E.44, A.45 Chain B: A.45, N.53, H.56 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:R.80, B:A.45 Hydrogen bonds: B:N.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bohl, T.E. et al., The substrate-binding cap of the UDP-diacylglucosamine pyrophosphatase LpxH is highly flexible, enabling facile substrate binding and product release. J. Biol. Chem. (2018)

Release Date

2018-04-11

Peptides

UDP-2,3-diacylglucosamine hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

UDP-2,3-diacylglucosamine hydrolase

Related Entries With Identical Sequence