SMTL ID : 5t25.1

Kinetic, Spectral and Structural Characterization of the Slow Binding Inhibitor Acetopyruvate with Dihydrodipicolinate Synthase from Escherichia coli.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

homo-dimer

Ligands

2 x LYS: LYSINE(Non-covalent)

LYS.1: 9 residues within 4Å: Chain A: S.49, A.50, L.52, H.54, H.57, Y.107 Chain B: N.81, E.85 Ligands: LYS.7 9 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: B:N.81, B:N.81, A:S.49, A:A.50, A:H.57, A:Y.107, K.1 Water bridges: B:Y.107, A:N.81 LYS.7: 8 residues within 4Å: Chain A: N.81, E.85 Chain B: S.49, A.50, L.52, H.57, Y.107 Ligands: LYS.1 11 PLIP interactions: 5 interactions with chain B, 4 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: B:S.49, B:A.50, B:H.57, B:Y.107, A:N.81, A:E.85, K.7 Water bridges: B:N.81, A:N.81, A:E.85 Salt bridges: K.7

10 x NA: SODIUM ION(Non-functional Binders)

NA.2: 5 residues within 4Å: Chain A: S.186, D.188, S.191, A.192, F.195 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.186 NA.3: 6 residues within 4Å: Chain A: T.78, T.90, C.101, T.103, I.123, Q.131 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.78, A:Q.131, A:Q.131 NA.4: 4 residues within 4Å: Chain A: A.153, V.155, K.156, I.158 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.156, A:I.158 NA.5: 3 residues within 4Å: Chain A: D.266, P.274, I.275 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.266, A:I.275 Water bridges: A:D.266 NA.6: 2 residues within 4Å: Chain A: R.22, A.23 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.22, A:A.23 NA.8: 4 residues within 4Å: Chain B: A.153, V.155, K.156, I.158 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.153 NA.9: 3 residues within 4Å: Chain B: L.145, P.146, E.147 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.147 Water bridges: B:E.147 NA.10: 3 residues within 4Å: Chain B: S.112, Q.113, E.114 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.113, B:E.114 Water bridges: B:S.112 NA.11: 3 residues within 4Å: Chain B: P.111, S.112, Q.113 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:P.111, B:Q.113 Water bridges: B:Q.113, B:D.143 NA.12: 2 residues within 4Å: Chain B: R.22, A.23 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.22, B:A.23

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chooback, L. et al., Kinetic, Spectral and Structural Characterization of the Slow Binding Inhibitor Acetopyruvate with Dihydrodipicolinate Synthase from Escherichia coli. To Be Published

Release Date

2017-03-01

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

4-hydroxy-tetrahydrodipicolinate synthase