4XZX | pdb_00004xzx

Shigella flexneri effector OspI C62S mutant

• PDB DOI: https://doi.org/10.2210/pdb4XZX/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Shigella flexneri
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2015-02-05 Released: 2016-02-10 
• Deposition Author(s): Nishide, A., Takagi, K., Minsoo, K., Sasakawa, C., Mizushima, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.246 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.177 (Depositor), 0.185 (DCC) 
• R-Value Observed: 
  0.181 (Depositor) 

Starting Model: experimental

Literature

New insights into the active site structure of Shigella effecter OspI

Nishide, A., Takagi, K., Minsoo, K., Sasakawa, C., Mizushima, T.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 24.19 kDa 
• Atom Count: 1,606 
• Modeled Residue Count: 192 
• Deposited Residue Count: 220 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ORF169b	A	220	Shigella flexneri	Mutation(s): 1  Gene Names: ORF169b
UniProt
Find proteins for Q8VSD5 (Shigella flexneri) Explore Q8VSD5  Go to UniProtKB:  Q8VSD5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	B [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.246 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.177 (Depositor), 0.185 (DCC) 
• R-Value Observed: 0.181 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.368	α = 90
b = 91.962	β = 90
c = 68.101	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-02-10 
Deposition Author(s): Nishide, A., Takagi, K., Minsoo, K., Sasakawa, C., Mizushima, T.

Revision History  

• Version 1.0: 2016-02-10
  Type: Initial release
  
• Version 1.1: 2020-02-05
  Changes: Data collection, Derived calculations
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Refinement description