1ZDM

Crystal Structure of Activated CheY Bound to Xe


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.224 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Distinguishing multiple chemotaxis Y protein conformations with laser-polarized 129Xe NMR.

Lowery, T.J.Doucleff, M.Ruiz, E.J.Rubin, S.M.Pines, A.Wemmer, D.E.

(2005) Protein Sci. 14: 848-855

  • DOI: 10.1110/ps.041231005

  • PubMed Abstract: 
  • The chemical shift of the (129)Xe NMR signal has been shown to be extremely sensitive to the local environment around the atom and has been used to follow processes such as ligand binding by bacterial periplasmic binding proteins. Here we show that t ...

    The chemical shift of the (129)Xe NMR signal has been shown to be extremely sensitive to the local environment around the atom and has been used to follow processes such as ligand binding by bacterial periplasmic binding proteins. Here we show that the (129)Xe shift can sense more subtle changes: magnesium binding, BeF(3)(-) activation, and peptide binding by the Escherichia coli chemotaxis Y protein. (1)H-(15)N correlation spectroscopy and X-ray crystallography were used to identify two xenon-binding cavities in CheY that are primarily responsible for the shift changes. One site is near the active site, and the other is near the peptide binding site.


    Related Citations: 
    • Crystal structure of activated CheY. Comparison with other activated receiver domains.
      Lee, S.Y.,Cho, H.S.,Pelton, J.G.,Yan, D.,Berry, E.A.,Wemmer, D.E.
      (2001) J.Biol.Chem. 276: 16425
    • NMR structure of activated chey
      Cho, H.S.,Lee, S.Y.,Yan, D.,Pan, X.,Parkinson, J.S.,Kustu, S.,Wemmer, D.E.,Pelton, J.G.
      (2000) J.Mol.Biol. --: 543
    • Crystal structure of an activated response regulator bound to its target.
      Lee, S.Y.,Cho, H.S.,Pelton, J.G.,Yan, D.,Henderson, R.K.,King, D.S.,Huang, L.,Kustu, S.,Berry, E.A.,Wemmer, D.E.
      (2001) Nat.Struct.Mol.Biol. --: 52


    Organizational Affiliation

    Physical Biosciences Divisions, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Chemotaxis protein cheY
A, B
129Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: cheY
Find proteins for P0AE67 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AE67
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A, B
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
XE
Query on XE

Download SDF File 
Download CCD File 
A, B
XENON
Xe
FHNFHKCVQCLJFQ-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
BFD
Query on BFD
A, B
L-PEPTIDE LINKINGC4 H6 Be F3 N O4ASP
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.224 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 53.730α = 90.00
b = 53.820β = 90.00
c = 161.170γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
CNSrefinement
MOSFLMdata reduction
CCP4data scaling
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-04-26
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance