2EG2

The crystal structure of PII protein

• PDB DOI: https://doi.org/10.2210/pdb2EG2/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Aquifex aeolicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-02-27 Released: 2008-03-04 
• Deposition Author(s): Sakai, H., Shinkai, A., Kitamura, Y., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.72 Å
• R-Value Free: 0.228 
• R-Value Work: 0.194 
• R-Value Observed: 0.194 

Starting Model: experimental

Literature

The crystal structure of PII protein

Sakai, H., Shinkai, A., Kitamura, Y., Kuramitsu, S., Yokoyama, S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly 2  

Global Symmetry: Tetrahedral - T  (Explore in 3D)
Global Stoichiometry: Homo 12-mer - A12 

Biological assembly 2 generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 13.06 kDa 
• Atom Count: 861 
• Modelled Residue Count: 95 
• Deposited Residue Count: 112 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nitrogen regulatory protein P-II	A	112	Aquifex aeolicus	Mutation(s): 0  Gene Names: glnB
UniProt
Find proteins for O66513 (Aquifex aeolicus (strain VF5)) Explore O66513  Go to UniProtKB:  O66513

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP	C [auth A]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.72 Å
• R-Value Free: 0.228 
• R-Value Work: 0.194 
• R-Value Observed: 0.194 
• Space Group: I 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.961	α = 90
b = 81.961	β = 90
c = 81.961	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-03-04 
Deposition Author(s): Sakai, H., Shinkai, A., Kitamura, Y., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2008-03-04
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.2: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description