SMTL ID : 5kvu.2 (3 other biounits)

Crystal structure of isocitrate dehydrogenase-2 in complex with NADP(+) from Mycobacterium tuberculosis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.66 Å

Oligo State

monomer

Ligands

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

NAP.1: 23 residues within 4Å: Chain A: K.84, P.86, N.87, I.88, S.89, N.137, R.141, I.350, A.353, T.564, A.566, G.586, G.587, S.588, A.589, P.590, K.591, H.592, R.603, W.604, D.605, R.652 Ligands: MLA.2 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:K.84, A:N.87, A:S.89, A:S.89, A:R.141, A:G.586, A:G.587, A:G.587, A:S.588, A:A.589, A:D.605, A:D.605 Water bridges: A:T.564 Salt bridges: A:H.592, A:R.603, A:R.652 pi-Stacking: A:H.592, A:H.592

1 x MLA: MALONIC ACID(Non-covalent)

MLA.2: 9 residues within 4Å: Chain A: S.89, S.134, N.137, R.141, K.257, Y.422, R.550, D.551 Ligands: NAP.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.89, A:S.134 Salt bridges: A:R.141, A:K.257, A:K.257, A:R.550

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

EDO.3: 4 residues within 4Å: Chain A: P.493, I.502, K.506, I.521 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.506, A:I.521 EDO.4: 3 residues within 4Å: Chain A: M.522, S.523, R.526 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.523, A:S.523

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sacchettini, J.C. et al., Structural and kinetic characterization of isocitrate dehydrogenase-2 from Mycobacterium tuberculosis. To Be Published

Release Date

2017-07-19

Peptides

Isocitrate dehydrogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Isocitrate dehydrogenase

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