4JOR

CFTR Associated Ligand (CAL) PDZ domain bound to HPV18 E6 oncoprotein C-terminal peptide (RLQRRRETQV)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.34 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.171 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Stereochemical Preferences Modulate Affinity and Selectivity among Five PDZ Domains that Bind CFTR: Comparative Structural and Sequence Analyses.

Amacher, J.F.Cushing, P.R.Brooks, L.Boisguerin, P.Madden, D.R.

(2014) Structure 22: 82-93

  • DOI: 10.1016/j.str.2013.09.019
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • PDZ domain interactions are involved in signaling and trafficking pathways that coordinate crucial cellular processes. Alignment-based PDZ binding motifs identify the few most favorable residues at certain positions along the peptide backbone. Howeve ...

    PDZ domain interactions are involved in signaling and trafficking pathways that coordinate crucial cellular processes. Alignment-based PDZ binding motifs identify the few most favorable residues at certain positions along the peptide backbone. However, sequences that bind the CAL (CFTR-associated ligand) PDZ domain reveal only a degenerate motif that overpredicts the true number of high-affinity interactors. Here, we combine extended peptide-array motif analysis with biochemical techniques to show that non-motif "modulator" residues influence CAL binding. The crystallographic structures of 13 CAL:peptide complexes reveal defined, but accommodating stereochemical environments at non-motif positions, which are reflected in modulator preferences uncovered by multisequence substitutional arrays. These preferences facilitate the identification of high-affinity CAL binding sequences and differentially affect CAL and NHERF PDZ binding. As a result, they also help determine the specificity of a PDZ domain network that regulates the trafficking of CFTR at the apical membrane.


    Organizational Affiliation

    Department of Biochemistry, Geisel School of Medicine at Dartmouth, Hanover, NH 03755, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Golgi-associated PDZ and coiled-coil motif-containing protein
A, B
87Homo sapiensMutation(s): 0 
Gene Names: GOPC (CAL, FIG)
Find proteins for Q9HD26 (Homo sapiens)
Go to Gene View: GOPC
Go to UniProtKB:  Q9HD26
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Protein E6
C, D
10Human papillomavirus type 18Mutation(s): 0 
Gene Names: E6
Find proteins for P06463 (Human papillomavirus type 18)
Go to UniProtKB:  P06463
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.34 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.171 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 33.205α = 90.00
b = 47.960β = 101.98
c = 52.852γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
HKL-2000data collection
PHENIXmodel building
PHENIXrefinement
XSCALEdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-01-22
    Type: Initial release