SMTL ID : 3mas.1

Crystal structure of heterodimeric R132H mutant of human cytosolic NADP(+)-dependent isocitrate dehydrogenase in complex with NADP and isocitrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-mer

Ligands

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 18 residues within 4Å: Chain A: K.72, A.74, T.75, I.76, T.77, R.82, N.96, L.288, H.309, G.310, T.311, V.312, T.313, R.314, H.315, T.327, N.328 Ligands: ICT.2 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:K.72, A:T.75, A:T.75, A:T.75, A:T.77, A:T.77, A:R.82, A:R.82, A:N.96, A:G.310, A:G.310, A:T.311, A:V.312, A:T.313, A:N.328, A:N.328 Salt bridges: A:R.314, A:H.315 NAP.3: 20 residues within 4Å: Chain B: K.77, A.79, T.80, I.81, T.82, R.87, N.101, L.293, G.294, E.311, H.314, G.315, T.316, V.317, T.318, R.319, H.320, T.332, N.333 Ligands: ICT.4 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:K.77, B:K.77, B:T.80, B:T.82, B:T.82, B:R.87, B:R.87, B:N.101, B:H.314, B:G.315, B:G.315, B:T.316, B:V.317, B:N.333 Salt bridges: B:R.319, B:H.320

2 x ICT: ISOCITRIC ACID(Non-covalent)

ICT.2: 5 residues within 4Å: Chain A: T.77, S.94, N.96, R.100 Ligands: NAP.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:T.77 Hydrogen bonds: A:T.77, A:S.94, A:G.97 Salt bridges: A:R.100, A:R.100 ICT.4: 5 residues within 4Å: Chain B: T.82, S.99, N.101, R.105 Ligands: NAP.3 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.82, B:S.99, B:N.101 Salt bridges: B:R.105, B:R.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, B. et al., Molecular mechanisms of "off-on switch" of activities of human IDH1 by tumor-associated mutation R132H. Cell Res. (2010)

Release Date

2010-11-10

Peptides

Isocitrate dehydrogenase [NADP] cytoplasmic: A
Isocitrate dehydrogenase [NADP] cytoplasmic: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Isocitrate dehydrogenase [NADP] cytoplasmic

Isocitrate dehydrogenase [NADP] cytoplasmic

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