4X2E | pdb_00004x2e

Clostridium difficile wild type Fic protein

• PDB DOI: https://doi.org/10.2210/pdb4X2E/pdb

• Classification: TRANSFERASE
• Organism(s): Clostridioides difficile R20291
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2014-11-26 Released: 2015-12-23 
• Deposition Author(s): Jorgensen, R., Dedic, E.
• Funding Organization(s): Danish Council for Independent Research

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 
  0.286 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.243 (Depositor), 0.248 (DCC) 
• R-Value Observed: 
  0.245 (Depositor) 

Starting Model: experimental

Literature

Structure of wild type Clostridium difficile Fic_0569 at 3.1 Angstroms resolution

Jorgensen, R., Dedic, E., Alsarraf, H., Welner, D., van Leeuwen, H.C., Oestergaard, O.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 assigned by authors and generated by (software)

Biological Assembly 4  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 109.48 kDa 
• Atom Count: 6,561 
• Modeled Residue Count: 797 
• Deposited Residue Count: 940 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fic family protein putative filamentation induced by cAMP protein	A, B, C, D	235	Clostridioides difficile R20291	Mutation(s): 0  Gene Names: CDR20291_0569

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free:  0.286 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.243 (Depositor), 0.248 (DCC) 
• R-Value Observed: 0.245 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.42	α = 90
b = 157.37	β = 90
c = 262.69	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
PHASER	phasing
PDB_EXTRACT	data extraction
XSCALE	data scaling

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2015-12-23 
Deposition Author(s): Jorgensen, R., Dedic, E.

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Funding Organization	Location	Grant Number
Danish Council for Independent Research	Denmark	11-104831/FSS

Revision History  

• Version 1.0: 2015-12-23
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Author supporting evidence, Data collection, Database references, Refinement description