1KEO

TWISTS AND TURNS OF THE CD-MPR: LIGAND-BOUND VERSUS LIGAND-FREE RECEPTOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Twists and turns of the cation-dependent mannose 6-phosphate receptor. Ligand-bound versus ligand-free receptor

Olson, L.J.Zhang, J.Dahms, N.M.Kim, J.J.

(2002) J.Biol.Chem. 277: 10156-10161

  • DOI: 10.1074/jbc.M112230200

  • PubMed Abstract: 
  • Mannose 6-phosphate receptors (MPRs) participate in the biogenesis of lysosomes in higher eukaryotes by transporting soluble acid hydrolases from the trans-Golgi network to late endosomal compartments. The receptors release their ligands into the aci ...

    Mannose 6-phosphate receptors (MPRs) participate in the biogenesis of lysosomes in higher eukaryotes by transporting soluble acid hydrolases from the trans-Golgi network to late endosomal compartments. The receptors release their ligands into the acidic environment of the late endosome and then return to the trans-Golgi network to repeat the process. However, the mechanism that facilitates ligand binding and dissociation upon changes in pH is not known. We report the crystal structure of the extracytoplasmic domain of the homodimeric cation-dependent MPR in a ligand-free form at pH 6.5. A comparison of the ligand-bound and ligand-free structures reveals a significant change in quaternary structure as well as a reorganization of the binding pocket, with the most prominent change being the relocation of a loop (residues Glu(134)-Cys(141)). The movements involved in the bound-to-free transition of the cation-dependent MPR are reminiscent of those of the oxy-to-deoxy hemoglobin transition. These results allow us to propose a mechanism by which the receptor regulates its ligand binding upon changes in pH; the pK(a) of Glu(133) appears to be responsible for ligand release in the acidic environment of the late endosomal compartment, and the pK(a) values of the sugar phosphate and His(105) are accountable for its inability to bind ligand at the cell surface where the pH is about 7.4.


    Related Citations: 
    • MOLECULAR BASIS OF LYSOSOMAL ENZYME RECOGNITION: THREE-DIMENSIONAL STRUCTURE OF THE CATION-DEPENDENT MANNOSE 6-PHOSPHATE RECEPTOR
      Roberts, D.L.,Weix, D.J.,Dahms, N.M.,Kim, J.-J.P.
      (1998) Cell 93: 639
    • STRUCTURAL BASIS FOR RECOGNITION OF PHOSPHORYLATED HIGH-MANNOSE OLIGOSACCHARIDES BY THE CATION-DEPENDENT MANNOSE 6-PHOSPHATE RECEPTOR
      Olson, L.J.,Zhang, J.,Lee, Y.C.,Dahms, N.M.,Kim, J.-J.P.
      (1999) J.Biol.Chem. 274: 29889


    Organizational Affiliation

    Department of Biochemistry, Medical College of Wisconsin, Milwaukee, Wisconsin 53226, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
cation-dependent mannose-6-phosphate receptor
A, B
154Bos taurusGene Names: M6PR
Find proteins for P11456 (Bos taurus)
Go to Gene View: M6PR
Go to UniProtKB:  P11456
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.215 
  • Space Group: I 4
Unit Cell:
Length (Å)Angle (°)
a = 108.772α = 90.00
b = 108.772β = 90.00
c = 72.670γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
SCALEPACKdata scaling
AMoREphasing
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-01-23
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Non-polymer description, Version format compliance