SMTL ID : 1cw7.1

LOW TEMPERATURE STRUCTURE OF WILD-TYPE IDH COMPLEXED WITH MG-ISOCITRATE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.307 Chain B: D.283 Ligands: ICT.3 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain A: D.283 Chain B: D.307 Ligands: ICT.6 No protein-ligand interaction detected (PLIP)

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 6 residues within 4Å: Chain A: V.107, G.108, G.109, G.110, I.111 Chain B: K.235 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.108, A:G.110, A:I.111 Water bridges: A:G.109, A:G.109 Salt bridges: B:K.235 SO4.5: 6 residues within 4Å: Chain A: K.235 Chain B: V.107, G.108, G.109, G.110, I.111 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.108, B:G.110, B:I.111 Water bridges: B:G.109, B:G.109 Salt bridges: A:K.235

2 x ICT: ISOCITRIC ACID(Non-covalent)

ICT.3: 12 residues within 4Å: Chain A: S.113, N.115, V.116, R.119, R.129, R.153, Y.160, D.307 Chain B: K.230, N.232, I.233 Ligands: MG.1 16 PLIP interactions: 4 interactions with chain B, 12 interactions with chain A Hydrophobic interactions: B:I.233, A:V.116 Hydrogen bonds: B:N.232, A:S.113, A:N.115 Salt bridges: B:K.230, B:K.230, A:R.119, A:R.129, A:R.153, A:R.153 Water bridges: A:R.129, A:R.129, A:R.129, A:T.338, A:T.338 ICT.6: 12 residues within 4Å: Chain A: K.230, N.232, I.233 Chain B: S.113, N.115, V.116, R.119, R.129, R.153, Y.160, D.307 Ligands: MG.4 17 PLIP interactions: 13 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:V.116, A:I.233 Hydrogen bonds: B:S.113, B:N.115, B:Y.160, A:N.232 Water bridges: B:R.129, B:R.129, B:R.129, B:T.338, B:T.338 Salt bridges: B:R.119, B:R.129, B:R.153, B:R.153, A:K.230, A:K.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cherbavaz, D.B. et al., Active site water molecules revealed in the 2.1 A resolution structure of a site-directed mutant of isocitrate dehydrogenase. J.Mol.Biol. (2000)

Release Date

1999-09-01

Peptides

ISOCITRATE DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ISOCITRATE DEHYDROGENASE