SMTL ID : 1vfs.1

Crystal structure of D-cycloserine-bound form of alanine racemase from D-cycloserine-producing Streptomyces lavendulae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

CL.1: 2 residues within 4Å: Chain A: M.107, W.108 Ligand excluded by PLIP

2 x DCS: D-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL]-N,O-CYCLOSERYLAMIDE(Non-covalent)

DCS.2: 19 residues within 4Å: Chain A: V.36, K.38, Y.42, W.84, R.136, W.166, H.168, N.208, S.209, P.210, R.224, T.225, G.226, L.227, Y.361 Chain B: Y.270, Y.289, A.317, M.318 18 PLIP interactions: 14 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:W.84, A:W.166 Hydrogen bonds: A:K.38, A:Y.42, A:Y.42, A:R.136, A:R.136, A:S.209, A:R.224, A:G.226, A:L.227, B:Y.270, B:M.318 Water bridges: A:N.208, A:N.208, B:Y.289, B:D.319 pi-Stacking: A:H.168 DCS.3: 18 residues within 4Å: Chain A: Y.270, Y.289, A.317, M.318 Chain B: K.38, Y.42, W.84, R.136, W.166, H.168, N.208, S.209, P.210, R.224, T.225, G.226, L.227, Y.361 18 PLIP interactions: 15 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:W.84, B:W.166 Hydrogen bonds: B:K.38, B:Y.42, B:R.136, B:R.136, B:H.168, B:S.209, B:R.224, B:G.226, B:L.227, B:Y.361, A:Y.289, A:M.318 Water bridges: B:N.208, B:N.208, A:Y.289 pi-Stacking: B:H.168

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Noda, M. et al., Structural evidence that alanine racemase from a D-cycloserine-producing microorganism exhibits resistance to its own product. J.Biol.Chem. (2004)

Release Date

2004-09-14

Peptides

alanine racemase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

alanine racemase

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