SMTL ID : 7jz7.1

Dihydrodipicolinate synthase mutant S48F

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

homo-tetramer

Ligands

8 x K: POTASSIUM ION(Non-covalent)

K.1: 4 residues within 4Å: Chain A: A.152, V.154, K.155, I.157 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:A.152, A:V.154, A:I.157, H2O.9, H2O.10 K.4: 3 residues within 4Å: Chain A: N.80, E.84 Chain B: A.49 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:E.84, B:A.49, H2O.21 K.5: 4 residues within 4Å: Chain B: A.152, V.154, K.155, I.157 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:A.152, B:V.154, B:I.157, H2O.22, H2O.22 K.9: 3 residues within 4Å: Chain A: A.49 Chain B: N.80, E.84 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:E.84, A:A.49, H2O.1, H2O.6 K.10: 4 residues within 4Å: Chain C: A.152, V.154, K.155, I.157 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:A.152, C:V.154, C:I.157, H2O.33, H2O.34 K.13: 3 residues within 4Å: Chain C: N.80, E.84 Chain D: A.49 3 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: D:A.49, C:E.84, H2O.44 K.14: 4 residues within 4Å: Chain D: A.152, V.154, K.155, I.157 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:A.152, D:V.154, D:I.157, H2O.46, H2O.46 K.18: 3 residues within 4Å: Chain C: A.49 Chain D: N.80, E.84 4 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: C:A.49, D:E.84, H2O.25, H2O.29

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 10 residues within 4Å: Chain A: T.45, Y.133, V.135, R.138, K.161, A.163, G.186, V.205, F.244, N.248 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.45, A:Y.133, A:R.138, A:K.161 GOL.3: 2 residues within 4Å: Chain A: R.21, K.25 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.21, A:R.21 GOL.6: 1 residues within 4Å: Chain B: R.109 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.109, B:R.109 GOL.7: 2 residues within 4Å: Chain B: I.86, H.125 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.125 GOL.8: 4 residues within 4Å: Chain B: Y.116, Q.117, K.120, R.150 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Y.116, B:Q.117, B:R.150 Water bridges: B:E.113, B:Y.116, B:R.150 GOL.11: 10 residues within 4Å: Chain C: T.45, Y.133, V.135, R.138, K.161, A.163, G.186, V.205, F.244, N.248 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:T.45, C:T.45, C:Y.133, C:Y.133, C:R.138, C:K.161 GOL.12: 2 residues within 4Å: Chain C: R.21, K.25 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.21, C:R.21 GOL.15: 1 residues within 4Å: Chain D: R.109 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.109, D:R.109 GOL.16: 2 residues within 4Å: Chain D: I.86, H.125 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:H.125 GOL.17: 4 residues within 4Å: Chain D: Y.116, Q.117, K.120, R.150 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:Q.117, D:R.150 Water bridges: D:E.113, D:Y.116, D:R.150

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Board, A.J. et al., Mapping the unchartered waters of dihydrodipicolinate synthase: a novel mechanism of allosteric inhibition. To Be Published

Release Date

2021-10-06

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

4-hydroxy-tetrahydrodipicolinate synthase

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