4QIC | pdb_00004qic

Co-Crystal Structure of Anti-anti-sigma factor PhyR complexed with Anti-sigma factor NepR from Bartonella quintana

• PDB DOI: https://doi.org/10.2210/pdb4QIC/pdb

• Classification: SIGNALING PROTEIN/DNA BINDING PROTEIN
• Organism(s): Bartonella quintana str. Toulouse
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-05-30 Released: 2015-07-29 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 
  0.219 (Depositor), 0.224 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.191 (Depositor) 

Starting Model: experimental

Literature

Co-Crystal Structure of Anti-anti-sigma factor PhyR complexed with Anti-sigma factor NepR from Bartonella quintana

Dranow, D.M., Edwards, T.E., Lorimer, D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Macromolecule Content 

• Total Structure Weight: 81.16 kDa 
• Atom Count: 4,777 
• Modeled Residue Count: 588 
• Deposited Residue Count: 714 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sensory transduction regulatory protein, Anti-anti-sigma factor PhyR	A, C	276	Bartonella quintana str. Toulouse	Mutation(s): 0  Gene Names: BQ10980
UniProt
Find proteins for A0A0M3KKV8 (Bartonella quintana (strain Toulouse)) Explore A0A0M3KKV8  Go to UniProtKB:  A0A0M3KKV8

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Anti-sigma factor NepR	B, D	81	Bartonella quintana str. Toulouse	Mutation(s): 0  Gene Names: BQ10970
UniProt
Find proteins for A0A0H3LV19 (Bartonella quintana (strain Toulouse)) Explore A0A0H3LV19  Go to UniProtKB:  A0A0H3LV19

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MPD	E [auth A], G [auth C]	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N
EDO	F [auth C]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free:  0.219 (Depositor), 0.224 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.191 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M34QIC

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.8	α = 90
b = 86.7	β = 90
c = 106.11	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-07-29 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2015-07-29
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Refinement description
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.3: 2025-10-22
  Changes: Structure summary