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

Human isocitrate dehydrogenase 1 bound with NADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 20 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, H.309, G.310, T.311, V.312, T.313, R.314, H.315, T.327, N.328, D.375 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:K.72, A:T.75, A:T.77, A:T.77, A:R.82, A:N.96, A:E.306, A:H.309, A:G.310, A:T.311, A:V.312, A:T.313, A:N.328 Water bridges: A:A.331 Salt bridges: A:R.314, A:H.315 NAP.3: 20 residues within 4Å: Chain B: K.72, A.74, T.75, I.76, T.77, R.82, N.96, G.289, E.306, A.307, H.309, G.310, T.311, V.312, T.313, R.314, H.315, T.327, N.328, D.375 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:K.72, B:T.75, B:T.75, B:T.77, B:T.77, B:R.82, B:N.96, B:E.306, B:G.310, B:T.311, B:V.312, B:T.313, B:T.313, B:N.328, B:N.328 Water bridges: B:A.331 Salt bridges: B:R.314, B:H.315

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.275, D.279 Chain B: D.252 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Metal complexes: B:D.252, A:D.275, A:D.275, A:D.279 MG.4: 3 residues within 4Å: Chain A: D.252 Chain B: D.275, D.279 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Metal complexes: B:D.275, B:D.275, B:D.279, A:D.252

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nordlund, P. et al., Human isocitrate dehydrogenase 1 bound with NADP. To Be Published

Release Date

2017-10-25

Peptides

Isocitrate dehydrogenase [NADP] cytoplasmic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
C

Isocitrate dehydrogenase [NADP] cytoplasmic

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