SMTL ID : 7kel.4 (5 other biounits)

Dihydrodipicolinate synthase (DHDPS) from C.jejuni, H59K mutant with pyruvate bound in the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 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 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.166 PGE.10: 6 residues within 4Å: Chain B: Q.128, Q.129, Y.132, D.162, T.163, K.166 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.166

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

ACT.2: 6 residues within 4Å: Chain A: T.59, Y.149, R.154, K.178, F.260, N.264 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.59 Hydrogen bonds: A:Y.149, A:N.264 Salt bridges: A:R.154 ACT.3: 4 residues within 4Å: Chain A: H.68, E.100, G.103, L.104 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.100 Salt bridges: A:H.68

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 1 residues within 4Å: Chain A: D.239 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.239, H2O.5 MG.5: 4 residues within 4Å: Chain A: C.82, K.83, T.85, V.87 No protein-ligand interaction detected (PLIP)

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

EDO.6: 8 residues within 4Å: Chain A: G.58, T.59, A.93, G.94, L.117, S.118, V.119 Chain B: Y.123 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.59, A:T.59, A:A.93, A:G.94, A:L.117, A:V.119, B:Y.123 EDO.7: 1 residues within 4Å: Chain A: K.83 No protein-ligand interaction detected (PLIP) EDO.8: 4 residues within 4Å: Chain A: T.161, D.162, D.189, H.193 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.193 Water bridges: A:D.162, A:D.162 EDO.9: 3 residues within 4Å: Chain A: N.183, D.185, K.186 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.183, A:D.185, A:D.185 EDO.11: 9 residues within 4Å: Chain A: Y.123 Chain B: G.58, T.59, S.63, A.93, G.94, L.117, S.118, V.119 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.63, B:S.63, B:A.93, B:G.94, B:L.117, B:V.119 EDO.12: 4 residues within 4Å: Chain B: H.68, H.99, G.103, L.104 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yazdi, M.M. et al., Reversing the roles of a crucial hydrogen-bonding pair: a lysine-insensitive mutant of Campylobacter jejuni dihydrodipicolinate synthase, H59K, binds histidine in its allosteric site. To Be Published

Release Date

2021-10-13

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
K

4-hydroxy-tetrahydrodipicolinate synthase

Related Entries With Identical Sequence