DENN Domain Proteins: Regulators of Rab GTPases*

The DENN domain is a common, evolutionarily ancient, and conserved protein module, yet it has gone largely unstudied; until recently, little was known regarding its functional roles. New studies reveal that various DENN domains interact directly with members of the Rab family of small GTPases and that DENN domains function enzymatically as Rab-specific guanine nucleotide exchange factors. Thus, DENN domain proteins appear to be generalized regulators of Rab function. Study of these proteins will provide new insights into Rab-mediated membrane trafficking pathways.

[1]  M. Zerial,et al.  Molecular cloning and subcellular localization of three GTP-binding proteins of the rab subfamily. , 1993, Journal of cell science.

[2]  Aldo Quattrone,et al.  Charcot-Marie-Tooth type 4B is caused by mutations in the gene encoding myotubularin-related protein-2 , 2000, Nature Genetics.

[3]  T. Meyer,et al.  PI(3,4,5)P3 and PI(4,5)P2 Lipids Target Proteins with Polybasic Clusters to the Plasma Membrane , 2006, Science.

[4]  T. Pawson,et al.  Assembly of Cell Regulatory Systems Through Protein Interaction Domains , 2003, Science.

[5]  Kenneth W Dunn,et al.  Rab10 regulates membrane transport through early endosomes of polarized Madin-Darby canine kidney cells. , 2006, Molecular biology of the cell.

[6]  J. Riley,et al.  Construction of a transcription map around the gene for ataxia telangiectasia: identification of at least four novel genes. , 1997, Genomics.

[7]  S. Antonarakis,et al.  Endocytic protein intersectin-l regulates actin assembly via Cdc42 and N-WASP , 2001, Nature Cell Biology.

[8]  I. Mellman,et al.  Rab10 is Involved in Basolateral Transport in Polarized Madin–Darby Canine Kidney Cells , 2007, Traffic.

[9]  B. Prabhakar,et al.  IG20, in contrast to DENN-SV, (MADD splice variants) suppresses tumor cell survival, and enhances their susceptibility to apoptosis and cancer drugs , 2004, Oncogene.

[10]  A. Harada,et al.  Regulation of endocytic recycling by C. elegans Rab35 and its regulator RME‐4, a coated‐pit protein , 2008, The EMBO journal.

[11]  P. McPherson,et al.  The Connecdenn Family, Rab35 Guanine Nucleotide Exchange Factors Interfacing with the Clathrin Machinery* , 2010, The Journal of Biological Chemistry.

[12]  N. Hirokawa,et al.  KIF1Bβ- and KIF1A-mediated axonal transport of presynaptic regulator Rab3 occurs in a GTP-dependent manner through DENN/MADD , 2008, Nature Cell Biology.

[13]  J. Laporte,et al.  Endosomal Phosphoinositides and Human Diseases , 2008, Traffic.

[14]  T. Sasaki,et al.  Role of Rab3 GDP/GTP exchange protein in synaptic vesicle trafficking at the mouse neuromuscular junction. , 2001, Molecular biology of the cell.

[15]  Y. Zhang,et al.  A splicing variant of a death domain protein that is regulated by a mitogen-activated kinase is a substrate for c-Jun N-terminal kinase in the human central nervous system. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[16]  W. Möbius,et al.  Regulation of exosome secretion by Rab35 and its GTPase-activating proteins TBC1D10A–C , 2010, The Journal of cell biology.

[17]  P. Howley,et al.  Identification of a human chromosome 11 gene which is differentially regulated in tumorigenic and nontumorigenic somatic cell hybrids of HeLa cells. , 1992, Cell growth & differentiation : the molecular biology journal of the American Association for Cancer Research.

[18]  B. Goud,et al.  Rab35 Regulates an Endocytic Recycling Pathway Essential for the Terminal Steps of Cytokinesis , 2006, Current Biology.

[19]  R. Baron,et al.  Rab3GEP Is the Non-redundant Guanine Nucleotide Exchange Factor for Rab27a in Melanocytes* , 2008, Journal of Biological Chemistry.

[20]  M. Vikkula,et al.  Disruption of ST5 is associated with mental retardation and multiple congenital anomalies , 2009, Journal of Medical Genetics.

[21]  V. Chow,et al.  DENN, a novel human gene differentially expressed in normal and neoplastic cells. , 1996, DNA sequence : the journal of DNA sequencing and mapping.

[22]  H. Urlaub,et al.  Quantitative Analysis of Synaptic Vesicle Rabs Uncovers Distinct Yet Overlapping Roles for Rab3a and Rab27b in Ca2+-Triggered Exocytosis , 2010, The Journal of Neuroscience.

[23]  Haipeng Cheng,et al.  Isolation and characterization of a human novel RAB (RAB39B) gene , 2002, Cytogenetic and Genome Research.

[24]  T. Schüpbach,et al.  Crag regulates epithelial architecture and polarized deposition of basement membrane proteins in Drosophila. , 2008, Developmental cell.

[25]  G. Superti-Furga,et al.  Myotubularin, a phosphatase deficient in myotubular myopathy, acts on phosphatidylinositol 3-kinase and phosphatidylinositol 3-phosphate pathway. , 2000, Human molecular genetics.

[26]  Carsten Bergmann,et al.  Mutation of the SBF2 gene, encoding a novel member of the myotubularin family, in Charcot-Marie-Tooth neuropathy type 4B2/11p15. , 2003, Human molecular genetics.

[27]  Y. Takai,et al.  Isolation and Characterization of a GDP/GTP Exchange Protein Specific for the Rab3 Subfamily Small G Proteins* , 1997, The Journal of Biological Chemistry.

[28]  John Kuriyan,et al.  Molecular mechanisms in signal transduction at the membrane , 2010, Nature Structural &Molecular Biology.

[29]  P. Novick,et al.  A Rab GAP cascade defines the boundary between two Rab GTPases on the secretory pathway , 2009, Proceedings of the National Academy of Sciences.

[30]  B. Goud,et al.  uDENN, DENN, and dDENN: indissociable domains in Rab and MAP kinases signaling pathways. , 2001, Biochemical and biophysical research communications.

[31]  J. Beneken,et al.  Mutational analysis of NM23-H2/NDP kinase identifies the structural domains critical to recognition of a c-myc regulatory element. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[32]  John Sondek,et al.  A crystallographic view of interactions between Dbs and Cdc42: PH domain‐assisted guanine nucleotide exchange , 2002, The EMBO journal.

[33]  Carol A. Miller,et al.  Down-regulation of DENN/MADD, a TNF receptor binding protein, correlates with neuronal cell death in Alzheimer's disease brain and hippocampal neurons , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[34]  Mitsunori Fukuda,et al.  Versatile role of Rab27 in membrane trafficking: focus on the Rab27 effector families. , 2005, Journal of biochemistry.

[35]  C. Rongo,et al.  EHBP-1 Functions with RAB-10 during Endocytic Recycling in Caenorhabditis elegans , 2010, Molecular biology of the cell.

[36]  P. McPherson,et al.  Variants of DENND1B associated with asthma in children. , 2010, The New England journal of medicine.

[37]  G. Lienhard,et al.  Rab10, a target of the AS160 Rab GAP, is required for insulin-stimulated translocation of GLUT4 to the adipocyte plasma membrane. , 2007, Cell metabolism.

[38]  M. Majidi,et al.  Activation of Extracellular Signal-regulated Kinase 2 by a Novel Abl-binding Protein, ST5* , 1998, The Journal of Biological Chemistry.

[39]  C. Ostrowicz,et al.  The Mon1-Ccz1 Complex Is the GEF of the Late Endosomal Rab7 Homolog Ypt7 , 2010, Current Biology.

[40]  P. McPherson,et al.  The NECAP PHear domain increases clathrin accessory protein binding potential , 2007, The EMBO journal.

[41]  J. Pereira-Leal,et al.  Evolution of the Rab family of small GTP-binding proteins. , 2001, Journal of molecular biology.

[42]  U. Suter,et al.  Multi-level regulation of myotubularin-related protein-2 phosphatase activity by myotubularin-related protein-13/set-binding factor-2. , 2006, Human molecular genetics.

[43]  A. Schievella,et al.  MADD, a Novel Death Domain Protein That Interacts with the Type 1 Tumor Necrosis Factor Receptor and Activates Mitogen-activated Protein Kinase* , 1997, The Journal of Biological Chemistry.

[44]  Y. Nikiforov,et al.  Knockdown of IG20 gene expression renders thyroid cancer cells susceptible to apoptosis. , 2009, The Journal of clinical endocrinology and metabolism.

[45]  P. McPherson,et al.  The Connecdenn DENN domain: a GEF for Rab35 mediating cargo-specific exit from early endosomes. , 2010, Molecular cell.

[46]  Tariq Ahmad,et al.  Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci , 2010, Nature Genetics.

[47]  Takayuki Mōri,et al.  Identification of rab12 as a vesicle‐associated small GTPase highly expressed in Sertoli cells of rat testis , 2005, Molecular reproduction and development.

[48]  Ingo Ruczinski,et al.  Variants of DENND1B associated with asthma in children. , 2010, The New England journal of medicine.

[49]  Rab39a Binds Caspase-1 and Is Required for Caspase-1-dependent Interleukin-1β Secretion* , 2009, The Journal of Biological Chemistry.

[50]  N. Mulherkar,et al.  IG20 (MADD splice variant-5), a proapoptotic protein, interacts with DR4/DR5 and enhances TRAIL-induced apoptosis by increasing recruitment of FADD and caspase-8 to the DISC , 2004, Oncogene.

[51]  Wei Guo,et al.  Coordination of Rab8 and Rab11 in primary ciliogenesis , 2010, Proceedings of the National Academy of Sciences.

[52]  M. Eck,et al.  Crystal Structure of the FERM Domain of Focal Adhesion Kinase* , 2006, Journal of Biological Chemistry.

[53]  R. Ravazzolo,et al.  Mutations in MTMR13, a new pseudophosphatase homologue of MTMR2 and Sbf1, in two families with an autosomal recessive demyelinating form of Charcot-Marie-Tooth disease associated with early-onset glaucoma. , 2003, American journal of human genetics.

[54]  Toshio Hakoshima,et al.  Structural basis of the membrane‐targeting and unmasking mechanisms of the radixin FERM domain , 2000, The EMBO journal.

[55]  J. Telliez,et al.  LRDD, a novel leucine rich repeat and death domain containing protein. , 2000, Biochimica et biophysica acta.

[56]  Timothy R Mahoney,et al.  Regulation of synaptic transmission by RAB-3 and RAB-27 in Caenorhabditis elegans. , 2006, Molecular biology of the cell.

[57]  J. Gécz,et al.  Mutations in the small GTPase gene RAB39B are responsible for X-linked mental retardation associated with autism, epilepsy, and macrocephaly. , 2010, American journal of human genetics.

[58]  A. Baranova,et al.  Molecular cloning, structural analysis, and expression of a human IRLB, MYC promoter-binding protein: new DENN domain-containing protein family emerges. , 2003, Genomics.

[59]  L. Samelson,et al.  Rab35 and Its GAP EPI64C in T Cells Regulate Receptor Recycling and Immunological Synapse Formation* , 2008, Journal of Biological Chemistry.

[60]  J. Gutkind,et al.  Deletion of the COOH Terminus Converts the ST5 p70 Protein from an Inhibitor of RAS Signaling to an Activator with Transforming Activity in NIH-3T3 Cells* , 2000, The Journal of Biological Chemistry.

[61]  Marino Zerial,et al.  Rab proteins as membrane organizers , 2001, Nature Reviews Molecular Cell Biology.

[62]  V. Rybin,et al.  Functional synergy between Rab5 effector Rabaptin-5 and exchange factor Rabex-5 when physically associated in a complex. , 2001, Molecular biology of the cell.

[63]  D. Lambright,et al.  Structural Mechanisms for Regulation of Membrane Traffic by Rab GTPases , 2009, Traffic : the International Journal of Intracellular Transport.

[64]  Kate S. Carroll,et al.  Role of Rab9 GTPase in Facilitating Receptor Recruitment by TIP47 , 2001, Science.

[65]  M. Scott,et al.  Rab35 Controls Actin Bundling by Recruiting Fascin as an Effector Protein , 2009, Science.

[66]  N. Mulherkar,et al.  Regulation of apoptosis and caspase-8 expression in neuroblastoma cells by isoforms of the IG20 gene. , 2008, Cancer research.

[67]  D. Devor,et al.  Recycling of the Ca2+-activated K+ Channel, KCa2.3, Is Dependent upon RME-1, Rab35/EPI64C, and an N-terminal Domain* , 2010, The Journal of Biological Chemistry.

[68]  N. Mulherkar,et al.  MADD, a Splice Variant of IG20, Is Indispensable for MAPK Activation and Protection against Apoptosis upon Tumor Necrosis Factor-α Treatment* , 2009, Journal of Biological Chemistry.

[69]  B. Goud,et al.  Two-hybrid System Screen with the Small GTP-binding Protein Rab6. IDENTIFICATION OF A NOVEL MOUSE GDP DISSOCIATION INHIBITOR ISOFORM AND TWO OTHER POTENTIAL PARTNERS OF Rab6 (*) , 1995, The Journal of Biological Chemistry.

[70]  J. Dixon,et al.  The Phosphoinositide-3-phosphatase MTMR2 Associates with MTMR13, a Membrane-associated Pseudophosphatase Also Mutated in Type 4B Charcot-Marie-Tooth Disease* , 2005, Journal of Biological Chemistry.

[71]  A. Notkins,et al.  The IA-2 interactome , 2005, Diabetologia.

[72]  J. Presley,et al.  Rab35 regulates neurite outgrowth and cell shape , 2009, FEBS letters.

[73]  M. Fukuda,et al.  Comprehensive Screening for Novel Rab‐Binding Proteins by GST Pull‐Down Assay Using 60 Different Mammalian Rabs ‡ , 2010, Traffic.

[74]  Y. Kalaidzidis,et al.  Rab Conversion as a Mechanism of Progression from Early to Late Endosomes , 2005, Cell.

[75]  J. Mandel,et al.  The myotubularin family: from genetic disease to phosphoinositide metabolism. , 2001, Trends in genetics : TIG.

[76]  O. Bakke,et al.  Major Histocompatibility Complex Class II-Peptide Complexes Internalize Using a Clathrin- and Dynamin-independent Endocytosis Pathway* , 2008, Journal of Biological Chemistry.

[77]  R. Schekman,et al.  Avl9p, a member of a novel protein superfamily, functions in the late secretory pathway. , 2007, Molecular biology of the cell.

[78]  B. Goud,et al.  Structural basis for recruitment of Rab6-interacting protein 1 to Golgi via a RUN domain. , 2009, Structure.

[79]  N. Hayward,et al.  Identification of ARHGEF17, DENND2D, FGFR3, and RB1 mutations in melanoma by inhibition of nonsense‐mediated mRNA decay , 2008, Genes, chromosomes & cancer.

[80]  F. Waharte,et al.  Rab6‐interacting Protein 1 Links Rab6 and Rab11 Function , 2007, Traffic.

[81]  R. Dominguez,et al.  Large nucleotide‐dependent conformational change in Rab28 , 2008, FEBS letters.

[82]  P. McPherson,et al.  Non-stoichiometric Relationship between Clathrin Heavy and Light Chains Revealed by Quantitative Comparative Proteomics of Clathrin-coated Vesicles from Brain and Liver*S , 2005, Molecular & Cellular Proteomics.

[83]  J. Bonifacino,et al.  Assembly of the Biogenesis of Lysosome-related Organelles Complex-3 (BLOC-3) and Its Interaction with Rab9* , 2010, The Journal of Biological Chemistry.

[84]  H. Stenmark Rab GTPases as coordinators of vesicle traffic , 2009, Nature Reviews Molecular Cell Biology.

[85]  Marino Zerial,et al.  Identification of the Switch in Early-to-Late Endosome Transition , 2010, Cell.

[86]  J. Dixon,et al.  Regulation of myotubularin-related (MTMR)2 phosphatidylinositol phosphatase by MTMR5, a catalytically inactive phosphatase , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[87]  Myeong Sup Lee,et al.  Rab35 Mediates Transport of Cdc42 and Rac1 to the Plasma Membrane during Phagocytosis , 2010, Molecular and Cellular Biology.

[88]  S. Harper,et al.  Connecdenn, A Novel DENN Domain-Containing Protein of Neuronal Clathrin-Coated Vesicles Functioning in Synaptic Vesicle Endocytosis , 2006, The Journal of Neuroscience.

[89]  D. Rigden,et al.  Family-wide characterization of the DENN domain Rab GDP-GTP exchange factors , 2010, The Journal of cell biology.

[90]  J. Staunton,et al.  aex-3 Encodes a Novel Regulator of Presynaptic Activity in C. elegans , 1997, Neuron.

[91]  Florence Demenais,et al.  A large-scale, consortium-based genomewide association study of asthma. , 2010, The New England journal of medicine.

[92]  D. Lambright,et al.  Structure, Exchange Determinants, and Family-Wide Rab Specificity of the Tandem Helical Bundle and Vps9 Domains of Rabex-5 , 2004, Cell.

[93]  M. Majidi,et al.  Expression of an isoform of the novel signal transduction protein ST5 is linked to cell morphology , 1999, Oncogene.