SMTL ID : 4m19.1

dihydrodipicolinate synthase from C. jejuni with pyruvate bound to the active site and Lysine bound to allosteric site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x LYS: LYSINE(Non-covalent)

LYS.1: 9 residues within 4Å: Chain A: S.59, A.60, L.62, H.64, H.67, Y.118 Chain B: N.92, E.96 Ligands: LYS.4 6 PLIP interactions: 2 Ligand-Ligand interactions, 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: K.4, B:N.92, B:N.92, A:H.67 Water bridges: K.4, B:Y.118 LYS.4: 10 residues within 4Å: Chain A: N.92, E.96 Chain B: S.59, A.60, L.62, H.64, H.67, N.92, Y.118 Ligands: LYS.1 7 PLIP interactions: 2 Ligand-Ligand interactions, 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: K.1, B:H.67, B:N.92, B:Y.118, A:N.92, A:N.92 Water bridges: K.1 LYS.5: 11 residues within 4Å: Chain C: S.59, A.60, L.62, T.63, H.64, H.67, N.92, Y.118 Chain D: N.92, E.96 Ligands: LYS.8 10 PLIP interactions: 3 interactions with chain C, 3 interactions with chain D, 4 Ligand-Ligand interactions Hydrogen bonds: C:H.67, C:Y.118, D:N.92, D:N.92, K.8, K.8, K.8 Water bridges: C:S.59, D:Y.118 Salt bridges: K.5 LYS.8: 9 residues within 4Å: Chain C: N.92, E.96 Chain D: S.59, A.60, L.62, H.64, H.67, Y.118 Ligands: LYS.5 9 PLIP interactions: 3 interactions with chain D, 3 Ligand-Ligand interactions, 3 interactions with chain C Hydrogen bonds: D:S.59, D:H.67, D:Y.118, K.5, K.5, C:N.92, C:N.92 Water bridges: K.5, C:Y.118

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

EDO.2: 2 residues within 4Å: Chain A: H.231, F.232 1 PLIP interactions: 1 interactions with chain A Water bridges: A:H.231 EDO.6: 2 residues within 4Å: Chain C: Y.269, L.270 2 PLIP interactions: 2 interactions with chain C Water bridges: C:Y.269, C:G.272

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 4 residues within 4Å: Chain A: E.65, T.69, E.106, H.107 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.69, A:T.69

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 5 residues within 4Å: Chain C: Q.125, Y.128, D.158, T.159, K.162 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.162 Water bridges: C:S.156

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Conly, C.J. et al., Tyrosine 110 Plays a Critical Role in Regulating the Allosteric Inhibition of Campylobacter jejuni Dihydrodipicolinate Synthase by Lysine. Biochemistry (2014)

Release Date

2015-01-14

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

4-hydroxy-tetrahydrodipicolinate synthase

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