SMTL ID : 3aaw.1

Crystal structure of aspartate kinase from Corynebacterium glutamicum in complex with lysine and threonine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-2-2-mer

Ligands

4 x THR: THREONINE(Non-covalent)

THR.1: 10 residues within 4Å: Chain A: D.274, K.275, P.276, G.277, E.278, A.279, Q.298, T.308 Chain B: N.125, I.126 14 PLIP interactions: 7 interactions with chain A, 3 Ligand-Ligand interactions, 4 interactions with chain B Hydrophobic interactions: A:T.308 Hydrogen bonds: A:D.274, A:G.277, A:E.278, A:A.279, A:Q.298, T.1, T.1, T.1, B:N.125, B:N.125, B:I.126, B:I.126 Water bridges: A:A.280 THR.3: 12 residues within 4Å: Chain A: N.374, I.375 Chain B: I.23, S.24, D.25, K.26, P.27, G.28, E.29, A.30, Q.49, T.59 11 PLIP interactions: 7 interactions with chain B, 2 Ligand-Ligand interactions, 2 interactions with chain A Hydrophobic interactions: B:I.23 Hydrogen bonds: B:D.25, B:G.28, B:E.29, B:A.30, B:Q.49, T.3, T.3, A:N.374, A:I.375 Water bridges: B:A.31 THR.5: 11 residues within 4Å: Chain C: S.273, D.274, K.275, P.276, G.277, E.278, A.279, Q.298, T.308 Chain D: N.125, I.126 13 PLIP interactions: 6 interactions with chain C, 4 interactions with chain D, 3 Ligand-Ligand interactions Hydrophobic interactions: C:T.308 Hydrogen bonds: C:G.277, C:E.278, C:A.279, C:Q.298, D:N.125, D:N.125, D:I.126, D:I.126, T.5, T.5, T.5 Water bridges: C:A.280 THR.7: 10 residues within 4Å: Chain C: N.374, I.375 Chain D: D.25, K.26, P.27, G.28, E.29, A.30, Q.49, T.59 12 PLIP interactions: 8 interactions with chain D, 2 interactions with chain C, 2 Ligand-Ligand interactions Hydrophobic interactions: D:T.59 Hydrogen bonds: D:D.25, D:D.25, D:G.28, D:E.29, D:A.30, D:Q.49, C:N.374, C:I.375, T.7, T.7 Water bridges: D:A.31

3 x LYS: LYSINE(Non-covalent)

LYS.2: 15 residues within 4Å: Chain A: M.354, K.355, H.357, P.358, G.359, V.360, T.361, T.380, S.381, E.382, R.384, I.385 Chain B: N.43, I.44, D.45 11 PLIP interactions: 3 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:I.44, A:I.385 Hydrogen bonds: B:N.43, B:I.44, A:K.355, A:G.359, A:V.360, A:T.361, A:T.361, A:S.381 Water bridges: A:A.362 LYS.4: 12 residues within 4Å: Chain C: M.354, H.357, G.359, V.360, T.361, S.381, E.382, R.384, I.385 Chain D: N.43, I.44, D.45 12 PLIP interactions: 7 interactions with chain C, 5 interactions with chain D Hydrophobic interactions: C:I.385, D:I.44 Hydrogen bonds: C:G.359, C:V.360, C:T.361, C:S.381, D:N.43, D:N.43, D:I.44, D:D.45 Water bridges: C:A.362, C:T.380 LYS.6: 10 residues within 4Å: Chain C: K.7, G.9, G.10, S.41, E.74, R.151, G.153, S.154, D.155, V.213 11 PLIP interactions: 9 interactions with chain C, 1 interactions with chain D, 1 Ligand-Ligand interactions Hydrogen bonds: C:G.10, C:S.41, C:S.41, C:E.74, C:R.151, C:S.154, C:D.155 Water bridges: C:S.11, C:G.153, D:E.3 Salt bridges: K.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yoshida, A. et al., Mechanism of concerted inhibition of {alpha}2{beta}2-type heterooligomeric aspartate kinase from Corynebacterium glutamicum. J.Biol.Chem. (2010)

Release Date

2010-06-23

Peptides

Aspartokinase: AC
Aspartokinase LysC beta subunit: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Aspartokinase

Aspartokinase LysC beta subunit

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