2nd PDZ Domain of Discs Large Homologue 2

Experimental Data Snapshot

  • Resolution: 1.85 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.200 

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This is version 1.2 of the entry. See complete history


Structure of Pick1 and Other Pdz Domains Obtained with the Help of Self-Binding C-Terminal Extensions.

Elkins, J.M.Papagrigoriou, E.Berridge, G.Yang, X.Phillips, C.Gileadi, C.Savitsky, C.Doyle, D.A.

(2007) Protein Sci 16: 683

  • DOI: https://doi.org/10.1110/ps.062657507
  • Primary Citation of Related Structures:  
    2BYG, 2FCF, 2FNE, 2GZV, 2HE2, 2HE4, 2I1N, 2IWN, 2IWO, 2IWP, 2IWQ

  • PubMed Abstract: 

    PDZ domains are protein-protein interaction modules that generally bind to the C termini of their target proteins. The C-terminal four amino acids of a prospective binding partner of a PDZ domain are typically the determinants of binding specificity. In an effort to determine the structures of a number of PDZ domains we have included appropriate four residue extensions on the C termini of PDZ domain truncation mutants, designed for self-binding. Multiple truncations of each PDZ domain were generated. The four residue extensions, which represent known specificity sequences of the target PDZ domains and cover both class I and II motifs, form intermolecular contacts in the expected manner for the interactions of PDZ domains with protein C termini for both classes. We present the structures of eight unique PDZ domains crystallized using this approach and focus on four which provide information on selectivity (PICK1 and the third PDZ domain of DLG2), binding site flexibility (the third PDZ domain of MPDZ), and peptide-domain interactions (MPDZ 12th PDZ domain). Analysis of our results shows a clear improvement in the chances of obtaining PDZ domain crystals by using this approach compared to similar truncations of the PDZ domains without the C-terminal four residue extensions.

  • Organizational Affiliation

    Structural Genomics Consortium, Oxford University, Botnar Research Centre, Oxford, OX3 7LD, United Kingdom.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CHANNEL ASSOCIATED PROTEIN OF SYNAPSE-110117Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q15700 (Homo sapiens)
Explore Q15700 
Go to UniProtKB:  Q15700
PHAROS:  Q15700
GTEx:  ENSG00000150672 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15700
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.85 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.200 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.774α = 90
b = 69.081β = 90
c = 73.967γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2005-08-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2023-12-13
    Changes: Data collection, Database references, Other, Refinement description