1HCX

Choline binding domain of the major autolysin (C-LytA) from Streptococcus pneumoniae


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.239 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

A Novel Solenoid Fold in the Cell Wall Anchoring Domain of the Pneumococcal Virulence Factor Lyta

Fernandez-Tornero, C.Lopez, R.Garcia, E.Gimenez-Gallego, G.Romero, A.

(2001) Nat.Struct.Mol.Biol. 8: 1020

  • DOI: 10.1038/nsb724
  • Primary Citation of Related Structures:  1H8G
  • Also Cited By: 1GVM, 1WRA, 2BML

  • PubMed Abstract: 
  • Choline binding proteins are virulence determinants present in several Gram-positive bacteria. Because anchorage of these proteins to the cell wall through their choline binding domain is essential for bacterial virulence, their release from the cell ...

    Choline binding proteins are virulence determinants present in several Gram-positive bacteria. Because anchorage of these proteins to the cell wall through their choline binding domain is essential for bacterial virulence, their release from the cell surface is considered a powerful target for a weapon against these pathogens. The first crystal structure of a choline binding domain, from the toxin-releasing enzyme pneumococcal major autolysin (LytA), reveals a novel solenoid fold consisting exclusively of beta-hairpins that stack to form a left-handed superhelix. This unique structure is maintained by choline molecules at the hydrophobic interface of consecutive hairpins and may be present in other choline binding proteins that share high homology to the repeated motif of the domain.


    Related Citations: 
    • Cloning and Expression of Gene Fragments Encoding the Choline-Binding Domain of Pneumococcal Murein Hydrolases
      Sanchez-Puelles, J.M.,Sanz, J.M.,Garcia, J.L.,Garcia, E.
      (1990) Gene 89: 69


    Organizational Affiliation

    Departamento de Estructura y Función de Proteínas, Centro de Investigaciones Biológicas - CSIC, C/ Velázquez 144, Madrid, 28006, Spain.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MAJOR AUTOLYSIN
A, B
127Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)Gene Names: lytA
EC: 3.5.1.28
Find proteins for P06653 (Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4))
Go to UniProtKB:  P06653
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DDQ
Query on DDQ

Download SDF File 
Download CCD File 
B
DECYLAMINE-N,N-DIMETHYL-N-OXIDE
C12 H27 N O
ZRKZFNZPJKEWPC-UHFFFAOYSA-N
 Ligand Interaction
TPT
Query on TPT

Download SDF File 
Download CCD File 
A
2,2':6',2''-TERPYRIDINE PLATINUM(II) Chloride
C15 H11 Cl N3 Pt
XTQMQLRZXBEQCS-UHFFFAOYSA-M
 Ligand Interaction
CHT
Query on CHT

Download SDF File 
Download CCD File 
A, B
CHOLINE ION
C5 H14 N O
OEYIOHPDSNJKLS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.239 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 58.049α = 90.00
b = 118.177β = 90.00
c = 104.859γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
SOLVEphasing
MOSFLMdata reduction
SHARPphasing
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-11-29
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance