SMTL ID : 2egh.1

Crystal structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase complexed with a magnesium ion, NADPH and fosmidomycin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: K.135, D.160, E.162, E.241 Ligands: FOM.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.160, A:E.162, A:E.241, H2O.6 MG.4: 5 residues within 4Å: Chain B: K.135, D.160, E.162, E.241 Ligands: FOM.5 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.160, B:E.162, B:E.241, H2O.12

2 x FOM: 3-[FORMYL(HYDROXY)AMINO]PROPYLPHOSPHONIC ACID(Non-covalent)

FOM.2: 13 residues within 4Å: Chain A: D.160, S.161, E.162, G.195, S.196, G.197, M.224, S.232, N.237, K.238, E.241, S.264 Ligands: MG.1 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:S.161, A:E.162, A:S.196, A:G.197, A:K.238, A:S.264 Water bridges: A:K.135, A:K.135, A:E.162, A:T.194, A:S.196, A:S.232, A:N.237 FOM.5: 14 residues within 4Å: Chain B: D.160, S.161, E.162, G.195, S.196, G.197, W.222, M.224, S.232, N.237, K.238, E.241 Ligands: MG.4, NDP.6 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:S.161, B:E.162, B:E.162, B:S.196, B:G.197, B:S.232, B:N.237, B:K.238 Water bridges: B:K.135, B:K.135

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.3: 21 residues within 4Å: Chain A: G.18, S.19, T.20, G.21, S.22, I.23, V.44, A.45, G.46, K.47, N.48, D.67, A.110, I.111, V.112, A.115, A.133, N.134, K.135, D.160, M.286 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.23, A:D.160 Hydrogen bonds: A:G.18, A:T.20, A:T.20, A:T.20, A:G.21, A:S.22, A:I.23, A:G.46, A:K.47, A:N.48, A:D.67, A:K.135 Water bridges: A:A.110, A:G.116 NDP.6: 22 residues within 4Å: Chain B: G.18, S.19, T.20, G.21, S.22, I.23, V.44, A.45, G.46, K.47, N.48, D.67, A.110, I.111, V.112, A.115, A.133, N.134, K.135, D.160, M.286 Ligands: FOM.5 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:I.23, B:D.160 Hydrogen bonds: B:G.18, B:T.20, B:T.20, B:T.20, B:G.21, B:S.22, B:I.23, B:G.46, B:K.47, B:N.48, B:D.67, B:K.135 Water bridges: B:G.21, B:G.24, B:N.48, B:E.136, B:E.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yajima, S. et al., Structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase in a quaternary complex with a magnesium ion, NADPH and the antimalarial drug fosmidomycin. Acta Crystallogr.,Sect.F (2007)

Release Date

2007-06-19

Peptides

1-deoxy-D-xylulose 5-phosphate reductoisomerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

1-deoxy-D-xylulose 5-phosphate reductoisomerase