SMTL ID : 5j32.2 (1 other biounit)

Isopropylmalate dehydrogenase in complex with isopropylmalate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.286, D.290 Chain B: D.262 Ligands: IPM.2 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:D.286, A:D.290, B:D.262, H2O.1, H2O.8 MG.3: 4 residues within 4Å: Chain A: D.262 Chain B: D.286, D.290 Ligands: IPM.4 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:D.286, B:D.290, A:D.262, H2O.1, H2O.21

2 x IPM: 3-ISOPROPYLMALIC ACID(Non-covalent)

IPM.2: 10 residues within 4Å: Chain A: R.134, R.144, R.172, Y.179, D.286 Chain B: K.230, N.232, V.233, D.262 Ligands: MG.1 15 PLIP interactions: 4 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:V.233 Hydrogen bonds: B:K.230, A:Y.179 Water bridges: B:N.232, A:R.144, A:R.144, A:R.144, A:D.290, A:D.290 Salt bridges: B:K.230, A:R.134, A:R.134, A:R.144, A:R.172, A:R.172 IPM.4: 11 residues within 4Å: Chain A: K.230, N.232, V.233, D.262 Chain B: E.127, R.134, R.144, R.172, Y.179, D.286 Ligands: MG.3 13 PLIP interactions: 4 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:V.233, B:E.127 Hydrogen bonds: A:K.230, B:D.286 Water bridges: A:N.232, B:R.144, B:D.290 Salt bridges: A:K.230, B:R.134, B:R.134, B:R.144, B:R.172, B:R.172

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, S.G. et al., Structure and Mechanism of Isopropylmalate Dehydrogenase from Arabidopsis thaliana: INSIGHTS ON LEUCINE AND ALIPHATIC GLUCOSINOLATE BIOSYNTHESIS. J.Biol.Chem. (2016)

Release Date

2016-05-11

Peptides

3-isopropylmalate dehydrogenase 2, chloroplastic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

3-isopropylmalate dehydrogenase 2, chloroplastic

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