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: 38.59 kDa 
• Atom Count: 3,139 
• Modelled Residue Count: 311 
• Deposited Residue Count: 311 
• Unique protein chains: 1

 2X8M

Crystal Structure of CbpF in complex with ipratropium by soaking

• PDB DOI: 10.2210/pdb2X8M/pdb

• Classification: CHOLINE-BINDING PROTEIN
• Organism(s): Streptococcus pneumoniae R6
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-03-10 Released: 2011-04-06 
• Deposition Author(s): Silva-Martin, N., Hermoso, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.256 
• R-Value Work: 0.219 
• R-Value Observed: 0.219 

Literature

Crystal Structures of Cbpf Complexed with Atropine and Ipratropium Reveal Clues for the Design of Novel Antimicrobials Against Streptococcus Pneumoniae.

Martin, N.S., Retamosa, M.G., Maestro, B., Bartual, S.G., Rodes, M.J., Garcia, P., Sanz, J.M., Hermoso, J.A.

(2013) Biochim Biophys Acta 1840: 129

• PubMed: 24036328 
• DOI: 10.1016/j.bbagen.2013.09.006
• Primary Citation of Related Structures:  
  2X8M, 2X8P


• PubMed Abstract: 
  

Streptococcus pneumoniae is a major pathogen responsible of important diseases worldwide such as pneumonia and meningitis. An increasing resistance level hampers the use of currently available antibiotics to treat pneumococcal diseases. Consequently, it is desirable to find new targets for the development of novel antimicrobial drugs to treat pneumococcal infections. Surface choline-binding proteins (CBPs) are essential in bacterial physiology and infectivity. In this sense, esters of bicyclic amines (EBAs) such as atropine and ipratropium have been previously described to act as choline analogs and effectively compete with teichoic acids on binding to CBPs, consequently preventing in vitro pneumococcal growth, altering cell morphology and reducing cell viability.

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Organizational Affiliation: 

Departamento de Cristalografía y Biología Estructural, Instituto de Química-Física 'Rocasolano', Consejo Superior de Investigaciones Científicas, Serrano 119, 28006 Madrid, Spain.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CHOLINE-BINDING PROTEIN F	A	311	Streptococcus pneumoniae R6	Mutation(s): 0  Gene Names: cbpF, spr0337
UniProt
Find proteins for Q8DR52 (Streptococcus pneumoniae (strain ATCC BAA-255 / R6)) Explore Q8DR52  Go to UniProtKB:  Q8DR52

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
X8M	D [auth A], F [auth A], H [auth A]	IPRATROPIUM C20 H30 N O3 OEXHQOGQTVQTAT-KKKDIUQISA-N
CHT	L [auth A], M [auth A], N [auth A], O [auth A], P [auth A], Q [auth A]	CHOLINE ION C5 H14 N O OEYIOHPDSNJKLS-UHFFFAOYSA-N
SO4	B [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	C [auth A], E [auth A], G [auth A], I [auth A], J [auth A], K [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.256 
• R-Value Work: 0.219 
• R-Value Observed: 0.219 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.335	α = 90
b = 115.69	β = 90
c = 73.201	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
MOSFLM	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-04-06 
Deposition Author(s): Silva-Martin, N., Hermoso, J.A.

Revision History  

• Version 1.0: 2011-04-06
  Type: Initial release
  
• Version 1.1: 2013-10-02
  Changes: Data collection, Database references, Non-polymer description, Refinement description, Version format compliance
• Version 1.2: 2013-11-13
  Changes: Database references