1D5W

PHOSPHORYLATED FIXJ RECEIVER DOMAIN

• PDB DOI: https://doi.org/10.2210/pdb1D5W/pdb

• Classification: GENE REGULATION
• Organism(s): Sinorhizobium meliloti
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 1999-10-12 Released: 2000-10-11 
• Deposition Author(s): Birck, C., Mourey, L., Gouet, P., Fabry, B., Schumacher, J., Rousseau, P., Kahn, D., Samama, J.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.244 
• R-Value Work: 0.217 
• R-Value Observed: 0.218 

Literature

Conformational changes induced by phosphorylation of the FixJ receiver domain.

Birck, C., Mourey, L., Gouet, P., Fabry, B., Schumacher, J., Rousseau, P., Kahn, D., Samama, J.P.

(1999) Structure 7: 1505-1515

• PubMed: 10647181 
• DOI: https://doi.org/10.1016/s0969-2126(00)88341-0
• Primary Citation of Related Structures:  
  1D5W


• PubMed Abstract: 
  

  A variety of bacterial adaptative cellular responses to environmental stimuli are mediated by two-component signal transduction pathways. In these phosphorelay cascades, histidine kinases transphosphorylate a conserved aspartate in the receiver domain, a conserved module in the response regulator superfamily. The main effect of this phosphorylation is to alter the conformation of the response regulator in order to modulate its biological function. The response regulator FixJ displays a typical modular arrangement, with a phosphorylatable N-terminal receiver domain and a C-terminal DNA-binding domain. In the symbiotic bacterium Sinorhizobium meliloti, phosphorylation of this response regulator activates transcription of nitrogen-fixation genes.

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Organizational Affiliation: 

Groupe de Cristallographie Biologique, CNRS-IPBS, Toulouse, France.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 42.26 kDa 
• Atom Count: 2,978 
• Modelled Residue Count: 367 
• Deposited Residue Count: 378 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSCRIPTIONAL REGULATORY PROTEIN FIXJ	A, B, C	126	Sinorhizobium meliloti	Mutation(s): 3
UniProt
Find proteins for P10958 (Rhizobium meliloti (strain 1021)) Explore P10958  Go to UniProtKB:  P10958

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	D [auth A], E [auth B], F [auth C], G [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PHD	A, B, C	L-PEPTIDE LINKING	C4 H8 N O7 P		ASP

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.244 
• R-Value Work: 0.217 
• R-Value Observed: 0.218 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 132.15	α = 90
b = 91.3	β = 112.45
c = 59.88	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
MOSFLM	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-10-11 
Deposition Author(s): Birck, C., Mourey, L., Gouet, P., Fabry, B., Schumacher, J., Rousseau, P., Kahn, D., Samama, J.P.

Revision History  

• Version 1.0: 2000-10-11
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2012-08-22
  Changes: Other
• Version 1.4: 2021-11-03
  Changes: Database references, Derived calculations