SMTL ID : 7kpe.2 (2 other biounits)

Dihydrodipicolinate synthase (DHDPS) from C.jejuni, E88Q mutant with pyruvate bound in the active site and R,R-bislysine at the allosteric site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-dimer

Ligands

1 x 3VN: (2R,5R)-2,5-diamino-2,5-bis(4-aminobutyl)hexanedioic acid(Non-covalent)

3VN.1: 14 residues within 4Å: Chain A: S.63, A.64, L.66, H.68, H.71, N.96, Y.122 Chain B: S.63, A.64, L.66, H.68, H.71, N.96, Y.122 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:A.64, A:H.71, A:N.96, A:N.96, A:N.96, B:H.71, B:N.96, B:N.96, B:Y.122

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 1 residues within 4Å: Chain A: D.239 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.239, H2O.1, H2O.4 MG.4: 3 residues within 4Å: Chain B: K.15, F.168, R.196 No protein-ligand interaction detected (PLIP) MG.5: 5 residues within 4Å: Chain B: G.92, A.93, G.94, L.117, V.119 No protein-ligand interaction detected (PLIP)

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

PGE.3: 6 residues within 4Å: Chain A: Q.128, Q.129, Y.132, D.162, T.163, K.166 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.166 Water bridges: A:Q.129, A:K.166

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

PEG.6: 5 residues within 4Å: Chain B: Q.129, Y.132, D.162, T.163, K.166 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.166 PEG.7: 7 residues within 4Å: Chain B: H.68, H.71, R.72, Q.100, G.103, L.104, F.107 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.68 Water bridges: B:F.107

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

ACT.8: 1 residues within 4Å: Chain B: E.48 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:E.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saran, S. et al., THE ALLOSTERIC SITE RESIDUE, E88 INTERACTS WITH THE INHIBITORS TO TRANSMIT THE ALLOSTERIC INHIBITION SIGNALS IN Cj.DHDPS BY FORMING A HYDROGEN BOND. To Be Published

Release Date

2021-11-17

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

4-hydroxy-tetrahydrodipicolinate synthase

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