SMTL ID : 1l6g.1

Alanine racemase bound with N-(5'-phosphopyridoxyl)-D-alanine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x PDD: N-(5'-PHOSPHOPYRIDOXYL)-D-ALANINE(Non-covalent)

PDD.1: 15 residues within 4Å: Chain A: K.39, Y.43, K.129, R.136, H.166, N.203, S.204, R.219, G.221, I.222, Y.354 Chain B: Y.265, Y.284, C.311, M.312 21 PLIP interactions: 18 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Y.354 Hydrogen bonds: A:K.39, A:Y.43, A:Y.43, A:R.136, A:R.136, A:N.203, A:S.204, A:R.219, A:G.221, A:I.222, B:Y.284, B:M.312 Water bridges: A:K.39, A:N.203, A:A.205, A:Y.354, B:Q.314 Salt bridges: A:K.39, A:R.136 pi-Stacking: A:H.166 PDD.2: 16 residues within 4Å: Chain A: Y.265, Y.284, C.311, M.312 Chain B: K.39, Y.43, L.85, K.129, R.136, H.166, N.203, S.204, R.219, G.221, I.222, Y.354 21 PLIP interactions: 17 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Y.354 Hydrogen bonds: B:K.39, B:Y.43, B:Y.43, B:R.136, B:R.136, B:N.203, B:S.204, B:R.219, B:G.221, B:I.222, A:Y.265, A:Y.284, A:M.312 Water bridges: B:K.39, B:Y.354, B:Y.354, A:Q.314 Salt bridges: B:K.39, B:R.136 pi-Stacking: B:H.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watanabe, A. et al., Reaction mechanism of alanine racemase from Bacillus stearothermophilus: x-ray crystallographic studies of the enzyme bound with N-(5'-phosphopyridoxyl)alanine. J.Biol.Chem. (2002)

Release Date

2002-06-05

Peptides

alanine racemase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

alanine racemase

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