3EMJ

2.2 A crystal structure of inorganic pyrophosphatase from rickettsia prowazekii (p21 form)

• PDB DOI: https://doi.org/10.2210/pdb3EMJ/pdb

• Classification: HYDROLASE
• Organism(s): Rickettsia prowazekii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-09-24 Released: 2008-10-07 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.267 
• R-Value Work: 0.227 
• R-Value Observed: 0.229 

Literature

2.2 A crystal structure of inorganic pyrophosphatase from rickettsia prowazekii (p21 form)

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 235.95 kDa 
• Atom Count: 16,189 
• Modelled Residue Count: 1,978 
• Deposited Residue Count: 2,076 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Inorganic pyrophosphatase	A, B, C, D, E, F, G, H, I, J, K, L	173	Rickettsia prowazekii	Mutation(s): 0  Gene Names: ppa, RP589 EC: 3.6.1.1
UniProt
Find proteins for Q9ZCW5 (Rickettsia prowazekii (strain Madrid E)) Explore Q9ZCW5  Go to UniProtKB:  Q9ZCW5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG4	M [auth E], N [auth L]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.267 
• R-Value Work: 0.227 
• R-Value Observed: 0.229 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.96	α = 90
b = 107.35	β = 96.05
c = 128.42	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-10-07 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2008-10-07
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations, Refinement description