SMTL ID : 1ixn.3 (3 other biounits)

Enzyme-Substrate Complex of Pyridoxine 5'-Phosphate Synthase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x DXP: 1-DEOXY-D-XYLULOSE-5-PHOSPHATE(Non-covalent)

DXP.1: 13 residues within 4Å: Chain A: N.8, D.10, H.11, H.44, R.46, H.51, E.71, T.101, T.102, F.132, H.192 Chain B: R.19 Ligands: G3P.2 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:T.102, A:F.132 Hydrogen bonds: A:N.8, A:T.101, A:T.102 Salt bridges: A:H.11, A:R.46, A:H.51, B:R.19 Water bridges: B:R.19 DXP.3: 13 residues within 4Å: Chain A: R.19 Chain B: N.8, D.10, H.11, H.44, R.46, H.51, E.71, T.101, T.102, F.132, H.192 Ligands: G3P.4 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:T.102, B:F.132 Hydrogen bonds: B:N.8, B:D.10, B:H.44, B:T.101, B:T.101, B:T.102 Salt bridges: B:H.11, B:R.46, B:H.51, A:R.19 Water bridges: A:R.19

2 x G3P: SN-GLYCEROL-3-PHOSPHATE(Non-covalent)

G3P.2: 12 residues within 4Å: Chain A: N.8, T.42, E.71, E.152, H.192, G.193, N.212, I.213, G.214, H.215 Chain B: R.19 Ligands: DXP.1 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:N.8, A:H.192, A:G.193, A:L.194, A:G.214, A:H.215 Water bridges: A:A.216, B:R.19, B:R.19 Salt bridges: A:H.192, B:R.19 G3P.4: 12 residues within 4Å: Chain A: R.19 Chain B: N.8, T.42, E.71, E.152, H.192, G.193, N.212, I.213, G.214, H.215 Ligands: DXP.3 12 PLIP interactions: 9 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:N.8, B:H.192, B:G.193, B:L.194, B:G.214, B:H.215 Water bridges: B:E.71, B:A.216, A:R.19, A:R.19 Salt bridges: B:H.192, A:R.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garrido-Franco, M. et al., Enzyme-ligand complexes of pyridoxine 5'-phosphate synthase: implications for substrate binding and catalysis. J.MOL.BIOL. (2002)

Release Date

2003-02-11

Peptides

Pyridoxine 5'-Phosphate Synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
D

Pyridoxine 5'-Phosphate Synthase

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