SMTL ID : 7klq.1 (2 other biounits)

Dihydrodipicolinate synthase (DHDPS) from C.jejuni, H59A mutant with pyruvate bound in the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 5 residues within 4Å: Chain A: Q.129, Y.132, D.162, T.163, K.166 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.162, A:K.166 Water bridges: A:K.166 PGE.2: 4 residues within 4Å: Chain A: S.160, T.161, D.162, D.189 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.160, A:S.160 PGE.9: 6 residues within 4Å: Chain B: Q.128, Q.129, Y.132, D.162, T.163, K.166 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.166 Water bridges: B:K.166

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

PEG.3: 6 residues within 4Å: Chain A: E.203, D.204, A.205, N.256, K.257, F.260 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.204, A:A.205, A:K.257 Water bridges: A:G.202, A:D.204 PEG.10: 2 residues within 4Å: Chain B: K.44, T.81 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain A: R.154, F.260, S.263, N.264 Ligands: ACT.5 No protein-ligand interaction detected (PLIP)

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 6 residues within 4Å: Chain A: Y.149, V.151, R.154, F.260, N.264 Ligands: MG.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.264 Hydrogen bonds: A:Y.149 Salt bridges: A:R.154

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

EDO.6: 3 residues within 4Å: Chain A: G.182, E.203 Ligands: EDO.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.203 EDO.7: 5 residues within 4Å: Chain A: A.180, S.181, G.182, E.203 Ligands: EDO.6 No protein-ligand interaction detected (PLIP) EDO.8: 6 residues within 4Å: Chain A: D.250, E.251, Y.253, N.254, K.304, Y.305 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.254, A:K.304, A:Y.305 EDO.11: 3 residues within 4Å: Chain B: E.100, G.103, L.104 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saran, S. et al., H59 PLAYS THE MOST VITAL ROLE IN THE TRANSMISSION OF THE ALLOSTERIC INHIBITION SIGNALS IN Cj.DHDPS ENZYME. To Be Published

Release Date

2021-11-03

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

4-hydroxy-tetrahydrodipicolinate synthase

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