SMTL ID : 6u4j.1

Crystal structure of IDH1 R132H mutant in complex with FT-2102

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 21 residues within 4Å: Chain A: K.72, A.74, T.75, I.76, T.77, R.82, N.96, G.289, E.306, A.307, A.308, H.309, G.310, T.311, V.312, T.313, R.314, H.315, T.327, N.328 Chain B: K.260 23 PLIP interactions: 20 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:K.72, A:T.75, A:T.75, A:T.77, A:T.77, A:T.77, A:R.82, A:R.82, A:N.96, A:H.309, A:G.310, A:T.311, A:V.312, A:N.328 Water bridges: A:Q.277, A:T.313, A:H.315, A:A.331, B:K.260, B:K.260 Salt bridges: A:R.314, A:H.315, B:K.260 NAP.4: 17 residues within 4Å: Chain B: T.75, I.76, T.77, R.82, V.276, Q.277, G.289, A.308, H.309, G.310, T.311, V.312, T.313, R.314, H.315, T.327, N.328 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:T.77, B:T.77, B:R.82, B:R.82, B:Q.277, B:G.310, B:T.311, B:V.312, B:N.328, B:N.328 Water bridges: B:L.288, B:G.289, B:R.314, B:H.315, B:A.331 Salt bridges: B:R.314, B:H.315

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: N.271, Y.272, D.273 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain B: N.271, Y.272, D.273 Ligand excluded by PLIP

2 x PWV: 5-{[(1S)-1-(6-chloro-2-oxo-1,2-dihydroquinolin-3-yl)ethyl]amino}-1-methyl-6-oxo-1,6-dihydropyridine-2-carbonitrile(Non-covalent)

PWV.3: 18 residues within 4Å: Chain A: R.109, E.110, A.111, I.113, R.119, L.120, W.124, P.127, I.128, I.130, A.258, M.259, W.267, D.279, V.281, A.282, Y.285, M.291 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:R.109, A:A.111, A:W.124, A:V.281, A:V.281, A:V.281, A:V.281, A:Y.285 Hydrogen bonds: A:R.109, A:A.111, A:L.120, A:I.128, A:I.128, A:D.279 pi-Stacking: A:W.124 PWV.7: 19 residues within 4Å: Chain A: S.280 Chain B: R.109, E.110, A.111, I.113, R.119, L.120, W.124, P.127, I.128, I.130, A.258, M.259, W.267, D.279, V.281, A.282, Y.285, M.291 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:R.109, B:A.111, B:W.124, B:V.281, B:V.281, B:V.281, B:V.281, B:Y.285 Hydrogen bonds: B:R.109, B:A.111, B:L.120, B:I.128, B:I.128, B:D.279 pi-Stacking: B:W.124

1 x FLC: CITRATE ANION(Non-covalent)

FLC.6: 4 residues within 4Å: Chain B: K.374, L.383, P.384, V.386 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:P.384, B:P.384, B:V.386 Salt bridges: B:K.374, B:K.374

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Caravella, J.A. et al., Structure-Based Design and Identification of FT-2102 (Olutasidenib), a Potent Mutant-Selective IDH1 Inhibitor. J.Med.Chem. (2020)

Release Date

2020-03-04

Peptides

Isocitrate dehydrogenase [NADP] cytoplasmic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Isocitrate dehydrogenase [NADP] cytoplasmic

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