SMTL ID : 3e5p.1 (1 other biounit)

Crystal structure of alanine racemase from E.faecalis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 12 residues within 4Å: Chain A: V.38, K.40, Y.44, L.86, H.169, N.206, S.207, R.222, G.224, V.225, Y.356 Chain B: D.315 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.38, A:L.86 Hydrogen bonds: A:K.40, A:Y.44, A:N.206, A:S.207, A:S.207, A:R.222, A:G.224, A:V.225, A:Y.356 Water bridges: A:A.208 PLP.5: 13 residues within 4Å: Chain A: Y.267 Chain B: V.38, K.40, Y.44, L.86, R.139, H.169, N.206, S.207, R.222, G.224, V.225, Y.356 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.86 Hydrogen bonds: B:Y.44, B:R.139, B:S.207, B:R.222, B:G.224, B:V.225, A:Y.267 Water bridges: B:N.206, B:A.208 Salt bridges: B:K.40

2 x PPI: PROPANOIC ACID(Non-covalent)

PPI.2: 6 residues within 4Å: Chain A: Y.267, Y.286, C.313, M.314 Chain B: I.354, Y.356 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:I.354, B:Y.356, B:Y.356, A:Y.267 Hydrogen bonds: A:Y.267, A:M.314 PPI.6: 4 residues within 4Å: Chain B: Y.267, Y.286, C.313, M.314 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.267, B:Y.286 Hydrogen bonds: B:Y.286, B:M.314 Water bridges: B:Q.316 Salt bridges: A:K.40

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.3: 8 residues within 4Å: Chain A: R.292, H.293, Q.295, R.311, K.350 Chain B: E.352, T.353 Ligands: 2PE.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.292, A:Q.295, A:K.350 Salt bridges: A:R.292, A:R.311

1 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)

2PE.4: 14 residues within 4Å: Chain A: H.293, K.350, L.351, E.352, T.353, I.354 Chain B: Y.267, R.292, H.293, Q.295, R.311, K.350, E.352 Ligands: EPE.3 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.267, B:R.292, B:R.292, B:R.311, B:K.350

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Priyadarshi, A. et al., Structural insights into the alanine racemase from Enterococcus faecalis. Biochim.Biophys.Acta (2009)

Release Date

2009-08-18

Peptides

Alanine racemase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Alanine racemase

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