SMTL ID : 3ah3.2 (1 other biounit)

Crystal structure of LR5-1, 3-isopropylmalate dehydrogenase created by directed evolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 3 residues within 4Å: Chain A: R.131 Chain B: K.144, L.181 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.131, B:K.144 SO4.6: 3 residues within 4Å: Chain A: K.144, L.181 Chain B: R.131 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Water bridges: B:R.131 Salt bridges: B:R.131, A:K.144 SO4.8: 3 residues within 4Å: Chain C: R.131 Chain D: K.144, L.181 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Salt bridges: C:R.131, D:K.144 SO4.13: 3 residues within 4Å: Chain C: K.144, L.181 Chain D: R.131 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Water bridges: D:R.131 Salt bridges: D:R.131, C:K.144

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

EDO.2: 2 residues within 4Å: Chain A: D.286, E.298 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.286, A:D.286 EDO.3: 1 residues within 4Å: Chain A: I.157 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.161 EDO.4: 2 residues within 4Å: Chain A: I.157, G.250 No protein-ligand interaction detected (PLIP) EDO.5: 2 residues within 4Å: Chain A: A.272, N.273 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.273, A:N.273 EDO.7: 2 residues within 4Å: Chain B: I.157, D.286 No protein-ligand interaction detected (PLIP) EDO.9: 2 residues within 4Å: Chain C: D.286, E.298 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:D.286 EDO.10: 1 residues within 4Å: Chain C: I.157 1 PLIP interactions: 1 interactions with chain C Water bridges: C:R.161 EDO.11: 2 residues within 4Å: Chain C: I.157, G.250 No protein-ligand interaction detected (PLIP) EDO.12: 2 residues within 4Å: Chain C: A.272, N.273 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.273, C:N.273 EDO.14: 2 residues within 4Å: Chain D: I.157, D.286 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Suzuki, Y. et al., Enhancement of the latent 3-isopropylmalate dehydrogenase activity of promiscuous homoisocitrate dehydrogenase by directed evolution. Biochem.J. (2010)

Release Date

2011-02-02

Peptides

Homoisocitrate dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

C
B

D
D

Homoisocitrate dehydrogenase

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