SMTL ID : 1pvf.1

E.coli IPP isomerase in complex with diphosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

homo-dimer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: H.25, H.32, H.69, E.114, E.116 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.25, A:H.32, A:H.69, A:E.114, A:E.116 MN.4: 5 residues within 4Å: Chain B: H.25, H.32, H.69, E.114, E.116 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.25, B:H.32, B:H.69, B:E.114, B:E.116

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: C.67, E.87 Ligands: DPO.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:C.67, A:E.87, H2O.1, H2O.1 MG.5: 3 residues within 4Å: Chain B: C.67, E.87 Ligands: DPO.6 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:C.67, B:E.87, H2O.5, H2O.5

2 x DPO: DIPHOSPHATE(Non-covalent)

DPO.3: 9 residues within 4Å: Chain A: K.21, R.51, K.55, C.67, G.68, H.69, R.83, E.87 Ligands: MG.2 16 PLIP interactions: 16 interactions with chain A Water bridges: A:K.21, A:R.51, A:R.51, A:R.51, A:K.55, A:C.67, A:H.69, A:R.83, A:E.135 Salt bridges: A:K.21, A:R.51, A:K.55, A:K.55, A:H.69, A:H.69, A:R.83 DPO.6: 9 residues within 4Å: Chain B: K.21, R.51, K.55, C.67, G.68, H.69, R.83, E.87 Ligands: MG.5 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:H.69, B:E.135 Water bridges: B:R.51, B:K.55, B:C.67, B:E.114, B:E.116, B:E.135 Salt bridges: B:K.21, B:R.51, B:K.55, B:K.55, B:H.69, B:H.69, B:R.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wouters, J. et al., E.coli Isopentenyl Diphosphate: Dimethylallyl Diphosphate isomerase in complex with diphosphate. To be Published

Release Date

2004-07-06

Peptides

Isopentenyl-diphosphate delta-isomerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Isopentenyl-diphosphate delta-isomerase

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