2ZHJ

Crystal Structure Analysis of the Sodium-Bound Annexin A4 at 1.34 A resolution

• PDB DOI: https://doi.org/10.2210/pdb2ZHJ/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2008-02-06 Released: 2009-02-10 
• Deposition Author(s): Butsushita, K., Ida, K., Fukuoka, S.-I., Arii, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 
  0.201 (Depositor), 0.940 (DCC) 
• R-Value Work: 
  0.143 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.143 (Depositor) 

Starting Model: experimental

Literature

Structural Analysis for the Soduim-Dependent Dissociation of Annexin A4: Crystal Structures of Soduim-Bound Annexin A4 at High Resolutions

Butsushita, K., Inoue, K., Ida, K., Fukuoka, S.-I., Arii, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 36.25 kDa 
• Atom Count: 2,875 
• Modelled Residue Count: 315 
• Deposited Residue Count: 322 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Annexin A4	A	322	Rattus norvegicus	Mutation(s): 0  Gene Names: Anxa4 Membrane Entity: Yes
UniProt
Find proteins for P55260 (Rattus norvegicus) Explore P55260  Go to UniProtKB:  P55260

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	B [auth A], C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free:  0.201 (Depositor), 0.940 (DCC) 
• R-Value Work:  0.143 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.143 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.427	α = 90
b = 39.528	β = 95.71
c = 65.51	γ = 90

Software Package:

Software Name	Purpose
SHELX	model building
SHELXL-97	refinement
HKL-2000	data collection
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-02-10 
Deposition Author(s): Butsushita, K., Ida, K., Fukuoka, S.-I., Arii, Y.

Revision History  

• Version 1.0: 2009-02-10
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description