Structures and target recognition modes of PDZ domains: recurring themes and emerging pictures

scientific article published on October 2013

Structures and target recognition modes of PDZ domains: recurring themes and emerging pictures is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1042/BJ20130783
P698PubMed publication ID24028161

P50authorMingjie ZhangQ52571130
P2093author name stringFei Ye
P2860cites workPIP(2)-PDZ domain binding controls the association of syntenin with the plasma membraneQ40721942
Molecular architecture of tight junctionsQ41748256
Interactions outside the boundaries of the canonical binding groove of a PDZ domain influence ligand binding.Q45369369
Lung disorders: a new model and modulator of pulmonary oedemaQ46448015
Large-scale identification and evolution indexing of tyrosine phosphorylation sites from murine brainQ46885585
Structure and function of the guanylate kinase-like domain of the MAGUK family scaffold proteinsQ58035193
Shank, a novel family of postsynaptic density proteins that binds to the NMDA receptor/PSD-95/GKAP complex and cortactinQ22010466
The cell-polarity protein Par6 links Par3 and atypical protein kinase C to Cdc42Q22254751
X11 alpha and x11 beta interact with presenilin-1 via their PDZ domainsQ24290528
Direct interaction of two polarity complexes implicated in epithelial tight junction assemblyQ24293221
Structure of Cdc42 in a complex with the GTPase-binding domain of the cell polarity protein, Par6Q24296040
Guanylate kinase domains of the MAGUK family scaffold proteins as specific phospho-protein-binding modulesQ24298323
Autoinhibition of X11/Mint scaffold proteins revealed by the closed conformation of the PDZ tandemQ24307500
The INAD scaffold is a dynamic, redox-regulated modulator of signaling in the Drosophila eyeQ24307816
Nitric oxide synthase complexed with dystrophin and absent from skeletal muscle sarcolemma in Duchenne muscular dystrophyQ24307833
Mutations in the SHANK2 synaptic scaffolding gene in autism spectrum disorder and mental retardationQ24312962
The tight junction protein ZO-1 is homologous to the Drosophila discs-large tumor suppressor protein of septate junctionsQ24316928
Survey of the frequency of USH1 gene mutations in a cohort of Usher patients shows the importance of cadherin 23 and protocadherin 15 genes and establishes a detection rate of above 90%Q24336023
Mutations in the gene encoding the synaptic scaffolding protein SHANK3 are associated with autism spectrum disordersQ24337114
Review series: The cell biology of hearingQ24601353
CRB3 binds directly to Par6 and regulates the morphogenesis of the tight junctions in mammalian epithelial cellsQ24632780
Internal recognition through PDZ domain plasticity in the Par-6-Pals1 complexQ24677661
Differential expression of PDZ domain-containing proteins in human diseases - challenging topics and novel issuesQ27015135
Structures of usher syndrome 1 proteins and their complexesQ27023615
Unexpected modes of PDZ domain scaffolding revealed by structure of nNOS-syntrophin complexQ27618075
Structure of the SH3-guanylate kinase module from PSD-95 suggests a mechanism for regulated assembly of MAGUK scaffolding proteinsQ27637177
Structural characterization of the intramolecular interaction between the SH3 and guanylate kinase domains of PSD-95Q27637181
Novel mode of ligand recognition by the Erbin PDZ domainQ27639994
Supramodular structure and synergistic target binding of the N-terminal tandem PDZ domains of PSD-95Q27640613
Tandem PDZ repeats in glutamate receptor-interacting proteins have a novel mode of PDZ domain-mediated target bindingQ27642341
Crystal structures of autoinhibitory PDZ domain of Tamalin: implications for metabotropic glutamate receptor trafficking regulationQ27644287
Redox-regulated conformational changes in an SH3 domainQ27644823
Clustering and synaptic targeting of PICK1 requires direct interaction between the PDZ domain and lipid membranesQ27648706
Dynamic scaffolding in a G protein-coupled signaling systemQ27648729
PDZ domains of Par-3 as potential phosphoinositide signaling integratorsQ27649319
Supramodular nature of GRIP1 revealed by the structure of its PDZ12 tandem in complex with the carboxyl tail of Fras1Q27649391
Domain-swapped dimerization of ZO-1 PDZ2 generates specific and regulatory connexin43-binding sitesQ27651231
Creating conformational entropy by increasing interdomain mobility in ligand binding regulation: a revisit to N-terminal tandem PDZ domains of PSD-95Q27653107
A conformational switch in the scaffolding protein NHERF1 controls autoinhibition and complex formationQ27658822
Distal Interactions within the par3−VE-Cadherin Complex,Q27658843
Structural basis for asymmetric association of the betaPIX coiled coil and shank PDZQ27659311
The structure of the harmonin/sans complex reveals an unexpected interaction mode of the two Usher syndrome proteinsQ27659663
Biomimetic divalent ligands for the acute disruption of synaptic AMPAR stabilizationQ27666419
Mechanism underlying selective regulation of G protein-gated inwardly rectifying potassium channels by the psychostimulant-sensitive sorting nexin 27Q27667305
The Src Homology 3 Domain Is Required for Junctional Adhesion Molecule Binding to the Third PDZ Domain of the Scaffolding Protein ZO-1Q27675242
A Conformational Switch in the CRIB-PDZ Module of Par-6Q27675535
A high-affinity, dimeric inhibitor of PSD-95 bivalently interacts with PDZ1-2 and protects against ischemic brain damageQ27677328
Ligand-Induced Dynamic Changes in Extended PDZ Domains from NHERF1Q27677356
Crystal structures of a complexed and peptide-free membrane protein-binding domain: molecular basis of peptide recognition by PDZQ27732927
Mutagenesis reveals a role for ABP/GRIP binding to GluR2 in synaptic surface accumulation of the AMPA receptorQ28138620
Coupling of mGluR/Homer and PSD-95 complexes by the Shank family of postsynaptic density proteinsQ28141190
Mints as adaptors. Direct binding to neurexins and recruitment of munc18Q28141531
Association of neuronal calcium channels with modular adaptor proteinsQ28142594
The Shank family of postsynaptic density proteins interacts with and promotes synaptic accumulation of the beta PIX guanine nucleotide exchange factor for Rac1 and Cdc42Q28181795
The rat brain postsynaptic density fraction contains a homolog of the Drosophila discs-large tumor suppressor proteinQ28198177
PDZ domains and the organization of supramolecular complexesQ28209906
ZO-1, DlgA and PSD-95/SAP90: homologous proteins in tight, septate and synaptic cell junctionsQ28251954
Membrane-associated guanylate kinases regulate adhesion and plasticity at cell junctionsQ28256167
Interaction of nitric oxide synthase with the postsynaptic density protein PSD-95 and alpha1-syntrophin mediated by PDZ domainsQ28278085
Origin of PDZ (DHR, GLGF) domainsQ28284240
Hidden dynamic allostery in a PDZ domain.Q37416575
Phototransduction motifs and variationsQ37616663
The spatial architecture of protein function and adaptationQ37710326
PDZ domains: the building blocks regulating tumorigenesisQ37939947
The emerging contribution of sequence context to the specificity of protein interactions mediated by PDZ domainsQ38019679
Modeling autism by SHANK gene mutations in miceQ38098737
Activation of TRP channels by protons and phosphoinositide depletion in Drosophila photoreceptors.Q39746122
Tyrosine dephosphorylation of the syndecan-1 PDZ binding domain regulates syntenin-1 recruitmentQ39882042
PDZ domain binding selectivity is optimized across the mouse proteomeQ40191457
Cdc42 regulates the Par-6 PDZ domain through an allosteric CRIB-PDZ transitionQ40578290
Binding of the inward rectifier K+ channel Kir 2.3 to PSD-95 is regulated by protein kinase A phosphorylationQ28294804
GRIP: a synaptic PDZ domain-containing protein that interacts with AMPA receptorsQ28305869
Normal establishment of epithelial tight junctions in mice and cultured cells lacking expression of ZO-3, a tight-junction MAGUK proteinQ28508837
The PDZ domains of mLin-10 regulate its trans-Golgi network targeting and the surface expression of AMPA receptorsQ28568471
Par-3-mediated junctional localization of the lipid phosphatase PTEN is required for cell polarity establishmentQ28572470
Clustering of AMPA receptors by the synaptic PDZ domain-containing protein PICK1Q28581221
Recognition of unique carboxyl-terminal motifs by distinct PDZ domainsQ29547580
Supertertiary structure of the MAGUK core from PSD-95.Q30009926
Supertertiary structure of the synaptic MAGuK scaffold proteins is conservedQ30010001
Beyond the binding site: the role of the β₂-β₃ loop and extra-domain structures in PDZ domainsQ30010158
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 coreQ30010228
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).Q30010229
Intramolecular interactions between the SRC homology 3 and guanylate kinase domains of discs large regulate its function in asymmetric cell divisionQ30157338
Interdomain interactions in the tumor suppressor discs large regulate binding to the synaptic protein GukHolderQ30159642
Assembly of epithelial tight junctions is negatively regulated by Par6.Q30308685
Extensions of PDZ domains as important structural and functional elementsQ30398142
Nuclear speckles and nucleoli targeting by PIP2-PDZ domain interactionsQ30476030
Formation of nNOS/PSD-95 PDZ dimer requires a preformed beta-finger structure from the nNOS PDZ domain.Q30616861
Interdomain chaperoning between PSD-95, Dlg, and Zo-1 (PDZ) domains of glutamate receptor-interacting proteinsQ30660494
A specificity map for the PDZ domain familyQ33373127
Deciphering the kinetic binding mechanism of dimeric ligands using a potent plasma-stable dimeric inhibitor of postsynaptic density protein-95 as an example.Q33615585
PDZ proteins interacting with C-terminal GluR2/3 are involved in a PKC-dependent regulation of AMPA receptors at hippocampal synapses.Q33932164
Casein kinase 2 regulates the NR2 subunit composition of synaptic NMDA receptorsQ34161800
Genetic and functional analyses of SHANK2 mutations suggest a multiple hit model of autism spectrum disordersQ34162345
Structure of the split PH domain and distinct lipid-binding properties of the PH-PDZ supramodule of alpha-syntrophinQ34324850
Energetic pathway sampling in a protein interaction domain.Q34786690
Organization of signaling complexes by PDZ-domain scaffold proteinsQ35177318
Connexin phosphorylation as a regulatory event linked to gap junction channel assemblyQ36162583
Genome-wide functional annotation of dual-specificity protein- and lipid-binding modules that regulate protein interactionsQ36200455
A systematic family-wide investigation reveals that ~30% of mammalian PDZ domains engage in PDZ-PDZ interactionsQ36235244
Usher I syndrome: unravelling the mechanisms that underlie the cohesion of the growing hair bundle in inner ear sensory cellsQ36284040
Reassessing a sparse energetic network within a single protein domainQ36534506
Organization and dynamics of PDZ-domain-related supramodules in the postsynaptic densityQ37372485
The scaffold protein PDZK1 undergoes a head-to-tail intramolecular association that negatively regulates its interaction with EBP50.Q37395713
P433issue1
P407language of work or nameEnglishQ1860
P304page(s)1-14
P577publication date2013-10-01
P1433published inBiochemical JournalQ864221
P1476titleStructures and target recognition modes of PDZ domains: recurring themes and emerging pictures
P478volume455

Reverse relations

cites work (P2860)
Q48167149(1)H, (13)C and (15)N backbone resonance assignments and dynamic properties of the PDZ tandem of Whirlin.
Q36978168A binding site outside the canonical PDZ domain determines the specific interaction between Shank and SAPAP and their function
Q27727997A molecular code for endosomal recycling of phosphorylated cargos by the SNX27-retromer complex
Q64027972A non-equilibrium approach to allosteric communication
Q41993379Addressing the role of the α-helical extension in the folding of the third PDZ domain from PSD-95.
Q35936842Affinity Enhancement by Ligand Clustering Effect Inspired by Peptide Dendrimers-Shank PDZ Proteins Interactions
Q60304169An unexpected INAD PDZ tandem-mediated plcβ binding in photo receptors
Q64067265Analysis of the role of the Hippo pathway in cancer
Q35599068Application of wavelet transform for PDZ domain classification
Q59358796Beyond Channel Activity: Protein-Protein Interactions Involving Viroporins
Q38260321C-terminomics: Targeted analysis of natural and posttranslationally modified protein and peptide C-termini
Q28548258Canonical and Noncanonical Sites Determine NPT2A Binding Selectivity to NHERF1 PDZ1
Q33435708Carboxy-terminal deletion of the HDL receptor reduces receptor levels in liver and steroidogenic tissues, induces hypercholesterolemia, and causes fatal heart disease
Q43093220Common features in the unfolding and misfolding of PDZ domains and beyond: the modulatory effect of domain swapping and extra-elements
Q42359299Conformational switch of harmonin, a submembrane scaffold protein of the hair cell mechanoelectrical transduction machinery
Q33639665Contrasting roles of dynamics in protein allostery: NMR and structural studies of CheY and the third PDZ domain from PSD-95.
Q41282687Cooperative stochastic binding and unbinding explain synaptic size dynamics and statistics.
Q54214355Current Strategies for Inhibition of Chikungunya Infection.
Q41193412Different conformational dynamics of PDZ1 and PDZ2 in full-length EBP50 analyzed by hydrogen/deuterium exchange mass spectrometry.
Q48257593Drosophila Big bang regulates the apical cytocortex and wing growth through junctional tension.
Q91668275Dynamic balance between vesicle transport and microtubule growth enables neurite outgrowth
Q49358566EPEC NleH1 is significantly more effective in reversing colitis and reducing mortality than NleH2 via differential effects on host signaling pathways.
Q24701760Early Events in Chikungunya Virus Infection-From Virus Cell Binding to Membrane Fusion
Q35624974Efficient human immunodeficiency virus (HIV-1) infection of cells lacking PDZD8
Q38741092Essential role of the Dishevelled DEP domain in a Wnt-dependent human-cell-based complementation assay
Q40280785Glutamate Receptor Interacting Protein 1 Regulates CD4(+) CTLA-4 Expression and Transplant Rejection.
Q35752883High-throughput methods for identification of protein-protein interactions involving short linear motifs.
Q46728557Identification of Sex-Linked SNPs and Sex-Determining Regions in the Yellowtail Genome
Q36224671Identification of the Mechanisms Causing Reversion to Virulence in an Attenuated SARS-CoV for the Design of a Genetically Stable Vaccine.
Q58743840Identifying weak interdomain interactions that stabilize the supertertiary structure of the N-terminal tandem PDZ domains of PSD-95
Q39876293Insights into the C-terminal Peptide Binding Specificity of the PDZ Domain of Neuronal Nitric-oxide Synthase: CHARACTERIZATION OF THE INTERACTION WITH THE TIGHT JUNCTION PROTEIN CLAUDIN-3.
Q100428030Interaction of protocadherin-15 with the scaffold protein whirlin supports its anchoring of hair-bundle lateral links in cochlear hair cells
Q27698087Interdomain interface-mediated target recognition by the Scribble PDZ34 supramodule
Q35945639Ligand binding to the PDZ domains of postsynaptic density protein 95.
Q27696135Ligand-induced compaction of the PEX5 receptor-binding cavity impacts protein import efficiency into peroxisomes
Q61451409Mechanisms of PDZ domain scaffold assembly illuminated by use of supported cell membrane sheets
Q38779098Mechanistic basis of MAGUK-organized complexes in synaptic development and signalling
Q60916997Molecular Dynamics Simulations of Wild Type and Mutants of SAPAP in Complexed with Shank3
Q40984886Myosin 7 and its adaptors link cadherins to actin.
Q90323753NaPi-IIa interacting partners and their (un)known functional roles
Q37137527Organic anion uptake by hepatocytes
Q34520797PLEKHA7 Recruits PDZD11 to Adherens Junctions to Stabilize Nectins
Q38723905PRMT5 C-terminal Phosphorylation Modulates a 14-3-3/PDZ Interaction Switch.
Q38275375PTEN-PDZ domain interactions: binding of PTEN to PDZ domains of PTPN13.
Q40151035Peptide-Protein Binding Investigated by Far-IR Spectroscopy and Molecular Dynamics Simulations
Q27727746Phase Transition in Postsynaptic Densities Underlies Formation of Synaptic Complexes and Synaptic Plasticity
Q30364686Protein interacting with C-kinase 1 (PICK1) binding promiscuity relies on unconventional PSD-95/discs-large/ZO-1 homology (PDZ) binding modes for nonclass II PDZ ligands.
Q35808644Protein-Protein Interactions of Viroporins in Coronaviruses and Paramyxoviruses: New Targets for Antivirals?
Q50033709Proteinaceous Regulators and Inhibitors of Protein Tyrosine Phosphatases.
Q38475692Regulation of Postsynaptic Stability by the L-type Calcium Channel CaV1.3 and its Interaction with PDZ Proteins
Q35434851Rigidified clicked dimeric ligands for studying the dynamics of the PDZ1-2 supramodule of PSD-95.
Q92154032SLC22A5 (OCTN2) Carnitine Transporter-Indispensable for Cell Metabolism, a Jekyll and Hyde of Human Cancer
Q36354833Secondary PDZ domain-binding site on class B plexins enhances the affinity for PDZ-RhoGEF
Q64245100Seeking allosteric networks in PDZ domains
Q38370778Signaling pathways in HPV-associated cancers and therapeutic implications.
Q48203496Site-Specific Phosphorylation of PSD-95 PDZ Domains Reveals Fine-Tuned Regulation of Protein-Protein Interactions
Q34060796Sorting Nexin 27 regulates basal and activity-dependent trafficking of AMPARs.
Q36798625Sorting nexin 27 couples PTHR trafficking to retromer for signal regulation in osteoblasts during bone growth
Q54979291Specific Eph receptor-cytoplasmic effector signaling mediated by SAM-SAM domain interactions.
Q91913292Specificity in PDZ-peptide interaction networks: Computational analysis and review
Q35860493Structural Basis of a Key Factor Regulating the Affinity between the Zonula Occludens First PDZ Domain and Claudins
Q91645298Structural Features of Tight-Junction Proteins
Q37843172Structural basis of the proteolytic and chaperone activity of Chlamydia trachomatis CT441.
Q33769778Structure analyses reveal a regulated oligomerization mechanism of the PlexinD1/GIPC/myosin VI complex
Q87893432Structure function relations in PDZ-domain-containing proteins: Implications for protein networks in cellular signalling
Q30009283Structure of Crumbs tail in complex with the PALS1 PDZ-SH3-GK tandem reveals a highly specific assembly mechanism for the apical Crumbs complex
Q43058873Structure of Myo7b/USH1C complex suggests a general PDZ domain binding mode by MyTH4-FERM myosins.
Q26766484Syndecans as Cell Surface Receptors in Cancer Biology. A Focus on their Interaction with PDZ Domain Proteins
Q40235051TEF30 Interacts with Photosystem II Monomers and Is Involved in the Repair of Photodamaged Photosystem II in Chlamydomonas reinhardtii.
Q35895297The Human Papillomavirus E6 PDZ Binding Motif: From Life Cycle to Malignancy
Q47245089The OC43 human coronavirus envelope protein is critical for infectious virus production and propagation in neuronal cells and is a determinant of neurovirulence and CNS pathology.
Q54287344The mechanism of binding of the second PDZ domain from the Protein Tyrosine Phosphatase-BL to the Adenomatous Polyposis Coli tumor suppressor.
Q35153145The role of backbone hydrogen bonds in the transition state for protein folding of a PDZ domain.
Q39196417The synaptic function of parkin.
Q39181492Trafficking and other regulatory mechanisms for organic anion transporting polypeptides and organic anion transporters that modulate cellular drug and xenobiotic influx and that are dysregulated in disease.
Q41195544Understanding the effect of alternative splicing in the folding and function of the second PDZ from protein tyrosine phosphatase-BL.
Q36168383Understanding the role of phosphorylation in the binding mechanism of a PDZ domain
Q39246229ZO-2, a tight junction protein involved in gene expression, proliferation, apoptosis, and cell size regulation.

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