SMTL ID : 7kr8.2 (2 other biounits)

Dihydrodipicolinate synthase (DHDPS) from C.jejuni, H56A mutant with pyruvate bound in the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

homo-dimer

Ligands

3 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.9: 3 residues within 4Å: Chain B: N.49, K.308, G.309 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:G.309 MG.10: 3 residues within 4Å: Chain B: K.15, F.168, R.196 No protein-ligand interaction detected (PLIP)

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

EDO.2: 6 residues within 4Å: Chain A: T.59, Y.149, V.151, R.154, F.260, N.264 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.154, A:N.264 EDO.3: 7 residues within 4Å: Chain A: L.211, G.214, G.215, K.216, A.237, L.238, Y.242 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.215, A:K.216, A:Y.242 EDO.4: 4 residues within 4Å: Chain A: P.152, G.156, C.157, E.158 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.152 EDO.11: 7 residues within 4Å: Chain B: L.211, G.214, G.215, K.216, A.237, L.238, Y.242 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.215, B:K.216, B:Y.242

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

PGE.5: 6 residues within 4Å: Chain A: Q.128, Q.129, Y.132, D.162, T.163, K.166 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.166

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

ACT.6: 4 residues within 4Å: Chain A: I.19, G.20, H.235, L.238 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.238 ACT.7: 2 residues within 4Å: Chain A: E.100 Chain B: E.100 1 PLIP interactions: 1 interactions with chain B Water bridges: B:A.64 ACT.12: 0 residues within 4Å: (No contacts) 2 PLIP interactions: 2 interactions with chain B Water bridges: B:K.86 Salt bridges: B:K.86 ACT.13: 3 residues within 4Å: Chain B: I.19, D.52, L.238 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.19 Hydrogen bonds: B:D.52

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

PEG.8: 4 residues within 4Å: Chain A: I.17, I.19, M.198, K.216 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saran, S. et al., ALLOSTERIC SITE RESIDUE 'H56' CAPS THE INHIBITOR AT THE TIGHT DIMER INTERFACE FOR TRANSMITTING THE ALLOSTERIC INHIBITION SIGNALS IN Cj.DHDPS. To Be Published

Release Date

2021-11-24

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
E

4-hydroxy-tetrahydrodipicolinate synthase

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