The emerging contribution of sequence context to the specificity of protein interactions mediated by PDZ domains

A high-affinity, dimeric inhibitor of PSD-95 bivalently interacts with PDZ1-2 and protects against ischemic brain damage

(2012) A. Bach et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Beyond the Binding Site: The Role of the β2 – β3 Loop and Extra-Domain Structures in PDZ Domains

(2012) Stefano Mostarda et al.   PLoS Computational Biology

A Dynamic View of Domain-Motif Interactions

(2012) Eyal Akiva et al.   PLoS Computational Biology

Phage display can select over-hydrophobic sequences that may impair prediction of natural domain–peptide interactions

(2011) Katja Luck et al.   BIOINFORMATICS

The INAD Scaffold Is a Dynamic, Redox-Regulated Modulator of Signaling in the Drosophila Eye

(2011) Wei Liu et al.   CELL

The Structure of the PDZ3-SH3-GuK Tandem of ZO-1 Protein Suggests a Supramodular Organization of the Membrane-associated Guanylate Kinase (MAGUK) Family Scaffold Protein Core

(2011) Lifeng Pan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Phosphorylation of a PDZ Domain Extension Modulates Binding Affinity and Interdomain Interactions in Postsynaptic Density-95 (PSD-95) Protein, a Membrane-associated Guanylate Kinase (MAGUK)

(2011) Jun Zhang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Src Homology 3 Domain Is Required for Junctional Adhesion Molecule Binding to the Third PDZ Domain of the Scaffolding Protein ZO-1

(2011) Julian Nomme et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Structural and Dynamic Response of MAGI-1 PDZ1 with Noncanonical Domain Boundaries to the Binding of Human Papillomavirus E6

(2011) Sebastian Charbonnier et al.   JOURNAL OF MOLECULAR BIOLOGY

Chemical synthesis of the third WW domain of TCERG 1 by native chemical ligation

(2011) Zerrin Fidan et al.   JOURNAL OF PEPTIDE SCIENCE

Emerging Theme: Cellular PDZ Proteins as Common Targets of Pathogenic Viruses

(2011) R. T. Javier et al.   JOURNAL OF VIROLOGY

Attributes of short linear motifs

(2011) Norman E. Davey et al.   Molecular BioSystems

ELM--the database of eukaryotic linear motifs

(2011) H. Dinkel et al.   NUCLEIC ACIDS RESEARCH

SMART 7: recent updates to the protein domain annotation resource

(2011) I. Letunic et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Analysis of PDZ Domain Binding Reveals Inherent Functional Overlap within the PDZ Interaction Network

(2011) Aartjan J. W. te Velthuis et al.   PLoS One

Molecular Basis for the Recognition of Adenomatous Polyposis Coli by the Discs Large 1 Protein

(2011) Zhenyi Zhang et al.   PLoS One

Putting into Practice Domain-Linear Motif Interaction Predictions for Exploration of Protein Networks

(2011) Katja Luck et al.   PLoS One

Mechanism underlying selective regulation of G protein-gated inwardly rectifying potassium channels by the psychostimulant-sensitive sorting nexin 27

(2011) B. Balana et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Peptides Targeting the PDZ Domain of PTPN4 Are Efficient Inducers of Glioblastoma Cell Death

(2011) Nicolas Babault et al.   STRUCTURE

Domain Orientation in the N-Terminal PDZ Tandem from PSD-95 Is Maintained in the Full-Length Protein

(2011) James J. McCann et al.   STRUCTURE

A Conformational Switch in the CRIB-PDZ Module of Par-6

(2011) Dustin S. Whitney et al.   STRUCTURE

Distal Interactions within the par3−VE-Cadherin Complex,

(2010) Robert C. Tyler et al.   BIOCHEMISTRY

A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding

(2010) Nicolas Lenfant et al.   BMC GENOMICS

Structural Diversity of PDZ-Lipid Interactions

(2010) Rodrigo Gallardo et al.   CHEMBIOCHEM

Structure-Based Prediction of the Peptide Sequence Space Recognized by Natural and Synthetic PDZ Domains

(2010) Colin A. Smith et al.   JOURNAL OF MOLECULAR BIOLOGY

Structural Basis for Asymmetric Association of the βPIX Coiled Coil and Shank PDZ

(2010) Young Jun Im et al.   JOURNAL OF MOLECULAR BIOLOGY

Surface plasmon resonance analysis of the binding of high-risk mucosal HPV E6 oncoproteins to the PDZ1 domain of the tight junction protein MAGI-1

(2010) Sadek Fournane et al.   JOURNAL OF MOLECULAR RECOGNITION

Biomimetic divalent ligands for the acute disruption of synaptic AMPAR stabilization

(2010) Matthieu Sainlos et al.   Nature Chemical Biology

Phospho.ELM: a database of phosphorylation sites--update 2011

(2010) H. Dinkel et al.   NUCLEIC ACIDS RESEARCH

The structure of the harmonin/sans complex reveals an unexpected interaction mode of the two Usher syndrome proteins

(2010) J. Yan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evidence for PDZ domains in bacteria, yeast, and plants

(2010) Christopher P. Ponting   PROTEIN SCIENCE

Combining peptide recognition specificity and context information for the prediction of the 14-3-3-mediated interactome in S. cerevisiae and H. sapiens

(2010) Simona Panni et al.   PROTEOMICS

Extensions of PDZ domains as important structural and functional elements

(2010) Conan K. Wang et al.   Protein & Cell

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

A Conformational Switch in the Scaffolding Protein NHERF1 Controls Autoinhibition and Complex Formation

(2009) Shibani Bhattacharya et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Solution structure of the human Tax-interacting protein-1

(2009) Michael A. Durney et al.   JOURNAL OF BIOMOLECULAR NMR

Molecular Mechanism of Inward Rectifier Potassium Channel 2.3 Regulation by Tax-Interacting Protein-1

(2009) Xiaojie Yan et al.   JOURNAL OF MOLECULAR BIOLOGY

Organization and dynamics of PDZ-domain-related supramodules in the postsynaptic density

(2009) Wei Feng et al.   NATURE REVIEWS NEUROSCIENCE

The Universal Protein Resource (UniProt) in 2010

(2009)   NUCLEIC ACIDS RESEARCH

Evidence for the Concerted Evolution between Short Linear Protein Motifs and Their Flanking Regions

(2009) Claudia Chica et al.   PLoS One

Hidden dynamic allostery in a PDZ domain

(2009) C. M. Petit et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assembling stable hair cell tip link complex via multidentate interactions between harmonin and cadherin 23

(2009) L. Pan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cell regulation: determined to signal discrete cooperation

(2009) Toby J. Gibson   TRENDS IN BIOCHEMICAL SCIENCES

Bayesian Modeling of the Yeast SH3 Domain Interactome Predicts Spatiotemporal Dynamics of Endocytosis Proteins

(2009) Raffi Tonikian et al.   PLOS BIOLOGY

Probing the Structure and Function of Human Glutaminase-Interacting Protein: A Possible Target for Drug Design†‡

(2008) Monimoy Banerjee et al.   BIOCHEMISTRY

Domain-swapped dimerization of ZO-1 PDZ2 generates specific and regulatory connexin43-binding sites

(2008) Jia Chen et al.   EMBO JOURNAL

Understanding eukaryotic linear motifs and their role in cell signaling and regulation

(2008) Francesca Diella   Frontiers in Bioscience-Landmark

Par-3-mediated Junctional Localization of the Lipid Phosphatase PTEN Is Required for Cell Polarity Establishment

(2008) Wei Feng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural Basis of β-Catenin Recognition by Tax-interacting Protein-1

(2008) Jinxiu Zhang et al.   JOURNAL OF MOLECULAR BIOLOGY

Creating Conformational Entropy by Increasing Interdomain Mobility in Ligand Binding Regulation: A Revisit to N-Terminal Tandem PDZ Domains of PSD-95

(2008) Wenning Wang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Predicting PDZ domain–peptide interactions from primary sequences

(2008) Jiunn R Chen et al.   NATURE BIOTECHNOLOGY

Crosstalk between small GTPases and polarity proteins in cell polarization

(2008) Sandra Iden et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Contextual Specificity in Peptide-Mediated Protein Interactions

(2008) Amelie Stein et al.   PLoS One

A quantitative atlas of mitotic phosphorylation

(2008) N. Dephoure et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Defining the minimal interacting regions of the tight junction protein MAGI-1 and HPV16 E6 oncoprotein for solution structure studies

(2008) Sebastian Charbonnier et al.   PROTEIN EXPRESSION AND PURIFICATION

A Specificity Map for the PDZ Domain Family

(2008) Raffi Tonikian et al.   PLOS BIOLOGY

Large-Scale Identification and Evolution Indexing of Tyrosine Phosphorylation Sites from Murine Brain

(2007) Bryan A. Ballif et al.   JOURNAL OF PROTEOME RESEARCH