SMTL ID : 1ai3.1

ORBITAL STEERING IN THE CATALYTIC POWER OF ENZYMES: SMALL STRUCTURAL CHANGES WITH LARGE CATALYTIC CONSEQUENCES

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x NDO: NICOTINAMIDE-(6-DEAMINO-6-HYDROXY-ADENINE)-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDO.1: 20 residues within 4Å: Chain A: I.37, K.100, G.101, P.102, L.103, T.104, T.105, A.337, T.338, H.339, G.340, T.341, A.342, P.343, V.351, N.352, Y.391, D.392, R.395 Chain B: R.292 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:K.100, A:L.103, A:T.105, A:T.338, A:H.339, A:G.340, A:T.341, A:A.342, A:N.352 Water bridges: A:D.392 Salt bridges: A:R.395 NDO.4: 20 residues within 4Å: Chain A: R.292 Chain B: I.37, K.100, G.101, P.102, L.103, T.104, T.105, A.337, T.338, H.339, G.340, T.341, A.342, P.343, V.351, N.352, Y.391, D.392, R.395 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:K.100, B:L.103, B:T.104, B:T.105, B:T.338, B:H.339, B:H.339, B:G.340, B:T.341, B:T.341, B:A.342, B:N.352 Water bridges: B:D.392 Salt bridges: B:R.395

2 x ICT: ISOCITRIC ACID(Non-covalent)

ICT.2: 10 residues within 4Å: Chain A: S.113, N.115, R.119, R.129, R.153, Y.160, D.307 Chain B: I.233, D.283 Ligands: MG.3 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.113, A:N.115, A:D.307, B:D.283 Water bridges: A:T.105, A:R.119, A:R.153, A:R.153, B:N.232 Salt bridges: A:R.119, A:R.119, A:R.129, A:R.153, A:R.153 ICT.5: 10 residues within 4Å: Chain A: I.233, D.283 Chain B: S.113, N.115, R.119, R.129, R.153, Y.160, D.307 Ligands: MG.6 15 PLIP interactions: 2 interactions with chain A, 13 interactions with chain B Hydrogen bonds: A:D.283, B:S.113, B:N.115, B:Y.160, B:D.307 Water bridges: A:N.232, B:N.115, B:R.119, B:R.153, B:R.153 Salt bridges: B:R.119, B:R.119, B:R.129, B:R.153, B:R.153

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: D.307, D.311 Chain B: D.283 Ligands: ICT.2 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:D.283, A:D.307, H2O.1, H2O.1 MG.6: 4 residues within 4Å: Chain A: D.283 Chain B: D.307, D.311 Ligands: ICT.5 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:D.307, A:D.283, H2O.12, H2O.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mesecar, A.D. et al., Orbital steering in the catalytic power of enzymes: small structural changes with large catalytic consequences. Science (1997)

Release Date

1997-11-12

Peptides

ISOCITRATE DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ISOCITRATE DEHYDROGENASE

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