117E

THE R78K AND D117E ACTIVE SITE VARIANTS OF SACCHAROMYCES CEREVISIAE SOLUBLE INORGANIC PYROPHOSPHATASE: STRUCTURAL STUDIES AND MECHANISTIC IMPLICATIONS

Structural Biology Knowledgebase: 117E SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.240
  • R-Value Work: 0.182

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 117E

Classification: HYDROLASE

Total Structure Weight: 65203.85

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (INORGANIC PYROPHOSPHATASE) A, B 286 Saccharomyces cerevisiae EC#: 3.6.1.1 IUBMB
Mutation: D117E
Details: PRODUCT COMPLEX
Gene Name(s): IPP1 PPA PPA1 Gene View YBR011C YBR0202
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PO4
Query on PO4

A, B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.240
  • R-Value Work: 0.182
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 58.40 α = 90.00
b = 102.80 β = 90.00
c = 116.70 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-09-15
  • Released Date: 1998-12-23
  • Deposition author(s): Tuominen, V., Heikinheimo, P., Kajander, T., Torkkel, T., Hyytia, T., Kapyla, J., Lahti, R., Cooperman, B.S., Goldman, A.

Revision History

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