SMTL ID : 1lkc.1

Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase from Salmonella enterica

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 7 residues within 4Å: Chain A: H.8, G.9, F.108, N.157, R.323, Y.328, R.337 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.9, A:S.30, A:N.157, A:Y.328 Water bridges: A:R.323, A:R.323, A:Y.328 Salt bridges: A:H.8, A:R.323, A:R.337 PO4.5: 7 residues within 4Å: Chain B: H.8, G.9, F.108, N.157, R.323, Y.328, R.337 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:G.9, B:S.30, B:N.157 Water bridges: B:H.8, B:R.323, B:R.323, B:Y.328 Salt bridges: B:H.8, B:R.323, B:R.337

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

PLP.2: 16 residues within 4Å: Chain A: G.84, E.85, T.86, I.89, F.108, C.153, N.157, D.185, A.187, F.188, S.213, T.215, K.216, R.224, L.225 Chain B: Y.56 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.108, A:N.157, A:A.187, A:K.216 Hydrogen bonds: A:E.85, A:T.86, A:T.86, A:N.157, A:S.213, A:T.215, A:T.215, B:Y.56 Salt bridges: A:K.216, A:R.224 pi-Stacking: A:F.108 PLP.6: 16 residues within 4Å: Chain A: Y.56 Chain B: G.84, E.85, T.86, I.89, F.108, C.153, N.157, D.185, A.187, F.188, S.213, T.215, K.216, R.224, L.225 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:F.108, B:N.157, B:A.187, B:K.216 Hydrogen bonds: B:E.85, B:T.86, B:N.157, B:S.213, B:T.215, B:T.215, B:K.216 Salt bridges: B:K.216, B:R.224 pi-Stacking: B:F.108

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: D.190, R.212, S.213, Y.227 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.212, A:Y.227 Water bridges: A:E.186, A:D.190 EDO.4: 5 residues within 4Å: Chain A: V.104, L.152, C.153, N.156, P.163 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.153 Water bridges: A:N.156, A:N.156 EDO.7: 4 residues within 4Å: Chain B: D.190, R.212, S.213, Y.227 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.190, B:R.212, B:Y.227, B:Y.227 Water bridges: B:E.186, B:D.190 EDO.8: 5 residues within 4Å: Chain B: V.104, L.152, C.153, N.156, P.163 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:C.153 Water bridges: B:N.156, B:N.156

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheong, C.G. et al., Three-dimensional structure of the L-threonine-O-3-phosphate decarboxylase (CobD) enzyme from Salmonella enterica. Biochemistry (2002)

Release Date

2002-05-01

Peptides

L-threonine-O-3-phosphate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

L-threonine-O-3-phosphate decarboxylase

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