1PPW

ISOPENTENYLPYROPHOSPHATE-DIMETHYLALLYLPYROPHOSPHATE ISOMERASE IN COMPLEX WITH THE BROMOHYDRINE OF IPP

Structural Biology Knowledgebase: 1PPW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.176

Literature

Macromolecules
Sequence Display for 1PPW

Classification: ISOMERASE

Total Structure Weight: 41975.80

Macromolecule Entities
Molecule Chains Length Organism Details
Isopentenyl-diphosphate delta-isomerase A, B 183 Escherichia coli EC#: 5.3.3.2 IUBMB
Gene Name(s): idi ygfV b2889 JW2857
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EIP
Query on EIP

A, B 4-HYDROXY-3-METHYL BUTYL DIPHOSPHATE
C5 H14 O8 P2
URURINNTPGGDIV-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
EIP N/A in BindingDB
IC50: 50000 nM  BindingMOAD
IC50: 50000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.176
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 69.09 α = 90.00
b = 71.88 β = 90.00
c = 91.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-06-17
  • Released Date: 2004-06-24
  • Deposition author(s): Wouters, J., Oldfield, E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4