SMTL ID : 1hqs.1

CRYSTAL STRUCTURE OF ISOCITRATE DEHYDROGENASE FROM BACILLUS SUBTILIS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.1: 12 residues within 4Å: Chain A: T.96, S.104, N.106, R.110, R.144, Y.151, D.311, T.344, H.345 Chain B: K.221, N.223, I.224 12 PLIP interactions: 3 interactions with chain B, 9 interactions with chain A Water bridges: B:K.221, B:N.223, A:T.96 Salt bridges: B:K.221, A:R.110, A:R.144, A:H.345 Hydrogen bonds: A:T.96, A:S.104, A:N.106, A:R.110, A:R.110 CIT.2: 11 residues within 4Å: Chain A: K.221, N.223, I.224 Chain B: T.96, S.104, N.106, R.110, R.144, Y.151, D.311 Ligands: PGR.9 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.104, B:N.106, B:R.110, B:R.110, B:Y.151, A:N.223 Water bridges: B:L.105 Salt bridges: B:R.110, B:R.144, A:K.221

5 x PGO: S-1,2-PROPANEDIOL(Non-covalent)

PGO.3: 8 residues within 4Å: Chain A: P.121, V.122, R.123, F.125, V.321, I.326, P.328 Ligands: PGO.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.125, A:I.326 Hydrogen bonds: A:P.121, A:R.123 PGO.4: 2 residues within 4Å: Chain A: R.123 Ligands: PGO.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.123 PGO.5: 6 residues within 4Å: Chain A: P.131 Chain B: R.134, D.137, L.294, T.295, P.297 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.137 Water bridges: B:R.134, B:L.294, A:P.131 PGO.6: 3 residues within 4Å: Chain B: W.251, Y.254, Q.270 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:W.251 Hydrogen bonds: B:W.251, B:Q.270 PGO.7: 5 residues within 4Å: Chain B: P.121, R.123, P.328, L.368, I.383 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:P.328, B:L.368 Water bridges: B:V.122, B:V.122, B:R.123

2 x PGR: R-1,2-PROPANEDIOL(Non-covalent)

PGR.8: 6 residues within 4Å: Chain A: K.233, Y.237, W.251, A.252, D.255, D.283 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.237, A:W.251, A:A.252 Water bridges: A:K.233 PGR.9: 6 residues within 4Å: Chain A: K.221, N.223, I.285, D.287, I.288 Ligands: CIT.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.288 Hydrogen bonds: A:N.223, A:D.287

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Singh, S.K. et al., Crystal structure of Bacillus subtilis isocitrate dehydrogenase at 1.55 A. Insights into the nature of substrate specificity exhibited by Escherichia coli isocitrate dehydrogenase kinase/phosphatase. J.Biol.Chem. (2001)

Release Date

2001-07-25

Peptides

ISOCITRATE DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ISOCITRATE DEHYDROGENASE