SMTL ID : 4wr3.1 (1 other biounit)

Y274F alanine racemase from E. coli

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

PLP.1: 13 residues within 4Å: Chain A: V.32, K.34, Y.38, L.78, H.159, A.193, S.194, R.209, P.210, G.211, I.212, Y.343 Ligands: GOL.8 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:K.34, A:L.78 Hydrogen bonds: A:Y.38, A:S.194, A:R.209, A:R.209, A:G.211, A:I.212 Water bridges: A:G.195, B:D.304 pi-Stacking: A:H.159 PLP.5: 12 residues within 4Å: Chain B: K.34, Y.38, R.129, H.159, A.193, S.194, R.209, P.210, G.211, I.212, Y.343 Ligands: GOL.4 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.34, B:A.193 Hydrogen bonds: B:K.34, B:Y.38, B:R.129, B:S.194, B:S.194, B:R.209, B:G.211, B:I.212, B:Y.343 Water bridges: B:G.195, B:Y.343, A:Y.255 pi-Stacking: B:H.159

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: K.122, R.129, L.130, H.159 Chain B: M.305 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.130 Water bridges: A:R.129 Salt bridges: A:K.122, A:R.129 SO4.3: 3 residues within 4Å: Chain A: R.266, A.314, Q.315 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.315 Water bridges: A:R.266 Salt bridges: A:R.266 SO4.6: 5 residues within 4Å: Chain A: M.305 Chain B: K.122, R.129, L.130, H.159 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:L.130 Water bridges: B:K.122, B:K.122, B:R.129, B:L.130 Salt bridges: B:K.122, B:R.129 SO4.7: 1 residues within 4Å: Chain B: R.266 2 PLIP interactions: 2 interactions with chain B Water bridges: B:K.317 Salt bridges: B:R.266

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: Y.255, A.302, M.303, D.304, M.305 Chain B: K.34, R.129 Ligands: PLP.5 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Y.255, A:M.303, A:D.304, A:D.304, A:M.305, B:R.129, B:R.129 GOL.8: 9 residues within 4Å: Chain A: K.34, R.129 Chain B: Y.255, F.274, A.302, M.303, D.304, M.305 Ligands: PLP.1 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Y.255, B:Y.255, B:M.303, B:D.304, B:D.304, B:D.304, B:M.305

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Soo, V.W. et al., Mechanistic and Evolutionary Insights from the Reciprocal Promiscuity of Two Pyridoxal Phosphate-dependent Enzymes. J.Biol.Chem. (2016)

Release Date

2015-11-04

Peptides

Alanine racemase, biosynthetic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alanine racemase, biosynthetic

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