Small GTPases and Their Regulators Part C: Proteins Involved in Transport PDF
Preview Small GTPases and Their Regulators Part C: Proteins Involved in Transport
Contributors to Volume 257 Article numbers are in parentheses following the names of contributors. Affiliations listed are current. LLIRIK VORDNAXELA (27), Cell Biology Pro- ANNAH EKMAD (24), Department of UeC Biol- gram, European Molecular Biology Labo- ogy, The Scripps Research Institute, La ,yrotar 69012 ,grebledieH Germany ,alloJ California 73029 SCOTt A. GNORTSMRA (5), Department of ENAITSIRHC REHCSAD (20, 21), Department Molecular Genetics, University of Texas of lleC Biology, The Scripps hcraeseR Insti- Southwestern Medical Center, Dallas, ,etut La Jolla, California 73029 Texas 53257 ORTEIP DE ILLIMAC (12), Department of lleC MAILLIW E. BALCH (1, 7, ,01 20, 21), -trapeD Biology, Howard Hughes Medical ,etutitsnI ments of Cell and Molecular Biology, The Yale University School of ,enicideM New sppircS hcraeseR ,etutitsnI La ,alloJ -rofilaC Haven, Connecticut 01560 ain 73029 A. ARABRAB PURTSJEVS-CARID (3), Depart- SELRAHC EWOLRAB (13), Department of Bio- ment of Biochemistry, Stanford ytisrevinU chemistry, Dartmouth Medical School, School of Medicine, Stanford, ainrofilaC Hanover, New Hampshire 55730 5O349 F. RALF FFOHCSIB (17), Division for -uceloM SOLRAC G. DOTTI (32), Cell Biology Pro- ral Biology of ,sisotiM German Cancer -eR ,marg European Molecular Biology Labo- search Center, D-69009 Heidelberg, ,yrotar D-69117 ,grebledieH Germany ynamreG PAUL DUPREE (32), Department of Plant -icS MAILLIW H. KYDNORB (14, 23), Promega -roC ,secne Cambridge University, Cambridge poration, Madison, Wisconsin 17735 2BC 3HA, United Kingdom LEAHCIM S. NWORB (5), Department of Mo- NYLIRAM GIST RAHUQRAF (29), Division of ralucel ,sciteneG ytisrevinU of Texas South- ralulleC and Molecular Medicine, -revinU western Medical Center, Dallas, Texas sity of ,ainrofilaC naS Diego, La ,alloJ -ilaC 53257 fornia 39029 H. ALEX NWORB (33), Department of Phar- NASUS FERRO-NovICK (4), Department of macology, Southwestern Medical ,retneC Cell Biology, Howard Hughes Medical In- ytisrevinU of ,saxeT Dallas, Texas 53257 ,etutits Yale ytisrevinU School of ,enicideM New Haven, Connecticut 01560 AILICEC BUCCI (2, 19), Dipartimento di Bio- aigol e Patologia eralulleC e eraloceloM ENIBAS BEAIDNUERF (24), Zentrum far Mo- "L. ,onafilaC "' 13108 Napoli, Italy lekulare Biologie red tiitisrevinU -ledieH ,greb D-69120 ,grebledieH Germany NAMREH BUJARD (24), Zentrum far Moleku- late Biologic red t~itisrevinU ,grebledieH DIETER ZTlWLLAG (15), Department of Mo- 02196-D ,grebledieH Germany ralucel Genetics, Max-Planck Institute for Biophysical Chemistry, D-37018 -tOG TENAJ L. NOTRUB (12), Department of Cell ,negnit Germany Biology, Howard Hughes Medical ,etutitsnI Yale University School of ,enicideM New ELLEHCIM D. rr~ERRAG (11, 26), Onyx Phar- Haven, Connecticut 01560 ,slacituecam Richmond, California 60849 ix X CONTRIBUTORS TO VOLUME 257 LARRY GERACE (30), Department of Cell Bi- CAROL MURPHY (34), Cell Biology Program, ology, The Scripps Research Institute, La European Molecular Biology Laboratory, Jolla, California 92037 D-69012 Heidelberg, Germany JOSEPH L. NIETS~ILOG (5), Department of Mo- HIROYUKI NAKANISHI (8), Department of Mo- lecular Genetics, University of Texas South- lecular Biology and Biochemistry, Osaka western Medical Center, Dallas, Texas University Medical School, Suita 565, Japan 53257 AKImRO NAga~YO (6), Department of Biologi- MANFRED GOSSEN (24), MCB Barker/Kosh- cal Sciences, Graduate School of Science, land ASU, University of California, Berke- University of Tokyo, Tokyo 113, Japan ley, California 02749 PETER J. NOVICK (1l, 26), Department of Cell RONALD W. HOLZ (25), Department of Phar- Biology, Yale University School of Medi- macology, University of Michigan Medical cine, New Haven, Connecticut 01560 School, Ann Arbor, Michigan 90184 CLAUDE NUOFFER (1, 10), Department of Cell HISANORI HORIUCHI (2, 27), CelIBiology Pro- Biology, The Scripps Research Institute, La gram, European Molecular Biology Labo- Jolla, California 92037 ratory, 69012 Heidelberg, Germany TOSHmIKO OKA (6), Department of Organic Lugs A. HUBER (32), Department of Bio- Chemistry and Biochemistry, Institute of chemistry, University of Geneva, CH-1211 Scientific and Industrial Research, Osaka Geneva ,4 Switzerland University, Osaka 567, Japan Yu JIANG (4), Department of Cell Biology, FRANK PETER (1, 10), Department of Cell Bi- Howard Hughes Medical Institute, Yale ology, The Scripps Research Institute, La University School of Medicine, New Haven, Jolla, California 92037 Connecticut 01560 SUZANNE R. PFEFVER (3, 28), Department of RICHARD A. KAHN (16), Laboratory of Bio- Biochemistry, Stanford University School logical Chemistry, Division of Cancer of Medicine, Stanford, California 50349 Treatment, National Cancer Institute, Na- HERWlG LGN~aSNOP (17), Division for Molec- tional Institutes of Health, Bethesda, Mary- ular Biology of Mitosis, German Cancer land 29802 Research Center, D-69009 Heidelberg, AKIRA KIKUCHI (8), Department of Biochem- Germany istry, Hiroshima University School of Medi- PAUL A. RANDAZZO (16), Laboratory of Bio- cine, Hiroshima 734, Japan logical Chemistry, Division of Cancer KEITaROU KIMU~ (6), Genetics Engineering Treatment, National Cancer Institute, Na- Laboratory, National Food Research Insti- tional Institutes of Health, Bethesda, Mary- tute, Tsukuba 305, Japan land 29802 IAN G. MaCARA (14, 23), Department of Pa- MARKUS A. RmDERER (3), Department of thology, University of Vermont, Burlington, Biochemistry, Stanford University School Vermont 50450 of Medicine, Stanford, California 50349 Luis MARTIN-PARRAS (22), Cell Biology Pro- DENISE M. ROBERTS (11), Department of Cell gram, European Molecular Biology Labo- Biology, Yale University School of Medi- ratory, D-69117 Heidelberg, Germany cine, New Haven, Connecticut 01560 J. MICHAEL MCCAFFERY (29), Division of GUENDALINA ROSSI (4), Department of Cell Cellular and Molecular Medicine, Univer- Biology, Howard Hughes Medical Institute, sity of California, San Diego, LaJolla, Cali- Yale University School of Medicine, New fornia 39029 Haven, Connecticut 01560 FRAUKE MELCHIOR (30), Department of Cell TONY ROWE (7), Department of Cell Biology, Biology, The Scripps Research Institute, La The Scripps Research Institute, La Jolla, Jolla, California 92037 California 92037 CONTRIBUTORS TO VOLUME 257 xi AYUKAT IKASAS (9), Department of Molecu- University Medical School and Department lar Biology and Biochemistry, Osaka Uni- of Cell Physiology, National Institute for versity Medical School, Suita 565, Japan Physiological Sciences, Suita, Osaka ,565 ELLEBASI KLAHCS (10), Department of Cell Japan Biology, The Scripps Research Institute, La LERUAL SAMOHT (21), Vollum Institute, Ore- Jolla, California 92037 gon Health Sciences University, Portland, YDNAR NAIv/KEHCS (13, 18), Departments of Oregon 10279 Molecular and Cell Biology, Howard YRAG SAMOHT (21), VoUum Institute, Oregon Hughes Medical Institute, University of Health Sciences University, Portland, Ore- California, Berkeley, Berkeley, California gon 10279 02749 NELLE J. ELADSIT (20), Department of Cell ARDNAS L. DIMHCS (24), Department of Cell Biology, The Scripps Research Institute, La Biology, The Scripps Research Institute, La Jolla, California 92037 Jolla, California 92037 LEAHCIM D. RELHU (25), Department of Bio- LEUGIM C. ARBAES (5), Department of Molec- logical Chemistry and The Mental Health ular Genetics, University of Texas South- Research Institute, University of Michigan western Medical Center, Dallas, Texas Medical School, Ann Arbor, Michigan 53257 90184 HTUR A. RETNES (25), Department of Phar- macology, University of Michigan Medical REVILO HCIRLLU (2, 27), Cell Biology Pro- School, Ann Arbor, Michigan 48109 gram, European Molecular Biology Labo- ratory, 69012 Heidelberg, Germany NALLA D. ORIPAHS (28), Department of Bio- chemistry, Stanford University School of YDUJ K. EKYLSNAV (21), Vollum Institute, Medicine, Stanford, California 50349 Oregon Health Sciences University, Port- land, Oregon 10279 IHCIMORIH IKATARIHS (31), Department of Cell Biology, National Institute for Physio- ARTEP REMLLOV (15), Department of Molecu- logical Sciences, Okazaki 444, Japan lar Genetics, Max Planck Institute for Bio- YRREIHT ITADLOS (3, 28), Department of Bio- physical Chemistry, D-37018 Gottingen, chemistry, Stanford University School of Germany Medicine, Stanford, California 50349 ARFO SSIEW (16), Department of Endocrinol- DLARAH KRAMNETS (19), Cell Biology Pro- ogy and Metabolism, Hadassah University gram, European Molecular Biology Labo- Hospital, Jerusalem ,02119 Israel ratory, D-69012 Heidelberg, Germany SAMOHT GNUEY (18), Division of Biochemis- PAUL C. SIEWNRETS (33), Department of try and Molecular Biology, Howard Hughes Pharmacology, University of Texas South- Medical Institute, University of California, western Medical Center, Dallas, Texas Berkeley, Berkeley, California 02749 53257 URHOT ASIHIHSOY (18), Department of Cell HAROBED J. TEEWS (30), Department of Cell Biology, Institute for Virus Research, Kyoto Biology, The Scripps Research Institute, La University, Kyoto ,10-606 Japan Jolla, California 92037 ONIRAM LAIREZ (2, 19, 22, 27, 34), Cell Biol- IMIHSOY IAKAT (8, 9, 31), Department of Mo- ogy Program, European Molecular Biology lecular Biology and Biochemistry, Osaka Laboratory, D-69012 Heidelberg, Germany Preface GTPases are now recognized as essential components for protein traffic between all compartments of the cell. This includes vesicular traffic through the exocytic and endocytic pathways, where GTPases play key roles in the assembly of vesicle coats (budding), in vesicle targeting and in fusion, as well as in protein traffic in and out of the nucleus. GTPases involved in transport include the Rab and ARF families, Sarl, Ran, dynamin, and heterotrimeric G proteins. In addition to GTPase, a number of associated accessory factors are critical for function. These include posttranslational modifying enzymes (such as prenyl transferases and myristyl transferases), factors that affect guanine nucleotide binding [guanine nucleotide dissocia- tion inhibitors (GDIs) and guanine nucleotide exchange factors (GEFs)], and factors that stimulate guanine nucleotide hydrolysis [GTPase-activating proteins (GAPs)]. To understand the function of GTPases and their cognate factors, a wealth of in vitro biochemical and in vivo molecular genetic approaches are currently being applied to individual proteins. Given the diverse spectrum of compartments regulated by individual GTPases, techniques developed for one particular member of a family are often applicable to other members. In a broader sense, many of the techniques developed for a particular gene family are also frequently applicable to other gene families given the exceptional structural configuration of GTPases. The purpose of this volume is to bring together the latest technologies in the study of GTPase function involved in protein trafficking. It provides concise descriptions of the recent methodological innovations that allow both the novice and experienced investigator to explore the function of these proteins in detail. We are extremely grateful to the many investigators who have generously contributed their time and expertise to bring this wealth of technical experience to one volume. It should provide a valuable resource to address the many issues confronting our understanding of the role of these GTPases in the biology of cell. W. E. BALCH GNINNAHC J. DER HALL ALAN xiii METHODS IN ENZYMOLOGY EMULOV I. Preparation and Assay of Enzymes Edited by SIDNEY P. KCIWOLOC DNA NATHAN O. KAPLAN EMULOV II. Preparation and Assay of Enzymes Edited by SIDNEY P. KCIWOLOC DNA NATHAN O. KAPLAN EMULOV III. Preparation and Assay of Substrates Edited by SIDNEY P. KCIWOLOC DNA NATHAN O. KAPLAN EMULOV IV. Special Techniques for the Enzymologist Edited by SIDNEY P. KCIWOLOC DNA NATHAN O. KAPLAN EMULOV V. Preparation and Assay of Enzymes Edited by SIDNEY P. KCIWOLOC DNA NATHAN O. KAPLAN EMULOV VI. Preparation and Assay of Enzymes (Continued) Preparation and Assay of Substrates Special Techniques Edited by SIDNEY P. KCIWOLOC DNA NATHAN O. KAPLAN EMULOV VII. Cumulative Subject Index Edited by SIDNEY P. KCIWOLOC DNA NATHAN O. KAPLAN EMULOV VIII. Complex Carbohydrates Edited by ELIZABETH F. NEUFELD DNA VICTOR GRUBSNIG EMULOV IX. Carbohydrate Metabolism Edited by WILLIS A. WOOD EMULOV X. Oxidation and Phosphorylation Edited by RONALD W. KOORBATSE DNA MAYNARD E. NAMLLUP EMULOV XI. Enzyme Structure Edited by C. H. W. HIRS EMULOV XII. Nucleic Acids (Parts A and B) Edited by ECNERWAL NAMSSORG DNA KIVIE EVADLOM EMULOV XIII. Citric Acid Cycle Edited by J. M. NIETSNEWOL EMULOV XIV. Lipids Edited yb J. M. NIETSNEWOL EMULOV XV. Steroids and Terpenoids Edited by DNOMYAR B. NOTYALC EMULOV XVI. Fast Reactions Edited by HTENNEK NITSUK XV XVi METHODS IN ENZYMOLOGY EMULOV XVII. Metabolism of Amino Acids and Amines (Parts A and B) Edited yb TREBREH ROBAT DNA CELIA ETIHW ROBAT EMULOV XVIII. Vitamins and Coenzymes (Parts A, B, and C) Edited by DLANOD B. KCIMRoCcM DNA LEUMEL D. THGIRW EMULOV XIX, Proteolytic Enzymes Edited by EDURTREG E. NNAMLREP DNA OLZSAL DNAROL EMULOV XX. Nucleic Acids and Protein Synthesis (Part C) Edited by KIVIE EVADLOM DNA ECNERWAL NAMSSORG EMULOV XXI. Nucleic Acids (Part D) Edited by ECNERWAL NAMSSORG DNA KIVIE EVADLOM EMULOV XXII. Enzyme Purification and Related Techniques Edited yb MAILLIW B. YBOKAJ EMULOV XXIII. Photosynthesis (Part A) Edited yb YNOHTNA NAS ORTEIP EMULOV XXIV. Photosynthesis and Nitrogen Fixation (Part B) Edited yb YNOHTNA NAS ORTEIP EMULOV XXV. Enzyme Structure (Part B) Edited by C. H. W. HIRS DNA EGRES N. FFEHSAMIT EMULOV XXVI. Enzyme Structure (Part C) Edited by C. H. W. HIRS DNA EGRES N. FFEHSAMIT EMULOV XXVII. Enzyme Structure (Part D) Edited by .C H. W. HIRS DNA EGRES N. FFEHSAMIT EMULOV XXVIII. Complex Carbohydrates (Part B) Edited by ROTCIV GRUBSNIG EMULOV XXIX. Nucleic Acids and Protein Synthesis (Part E) Edited by ECNERWAL NAMSSORG DNA KIVIE EVADLOM EMULOV XXX. Nucleic Acids and Protein Synthesis (Part F) Edited by KIVIE EVADLOM DNA ECNERWAL NAMSSORG EMULOV XXXI. Biomembranes (Part A) Edited by YENDIS REHCSIELF DNA RETSEL REKCAP EMULOV XXXII. Biomembranes (Part )B Edited by SIDNEY FLEISCHER AND LESTER PACKER EMULOV XXXIII. Cumulative Subject Index Volumes I-XXX Edited by AHTRAM G. SINNED DNA DRAWDE A. SINNED EMULOV XXXIV. Affinity Techniques (Enzyme Purification: Part B) Edited by MAILLIW B. YBOKAJ DNA MEIR KEHCLIW EMULOV XXXV, Lipids (Part B) by Edited NHOJ .M NIETSNEWOL METHODS IN ENZYMOLOGY xvii EMULOV XXXVI. Hormone Action (Part A: Steroid Hormones) Edited by BERT W. O'MALLEY DNA JOEL G. NAMDRAH EMULOV XXXVII. Hormone Action (Part B: Peptide Hormones) Edited by BERT W. O'MALLEY AriD JOEL G. NAMDRAH EMULOV XXXVIII. Hormone Action (Part C: Cyclic Nucleotides) Edited by JOEL G. HARDMAN AND BERT W. O'MALLEY EMULOV XXXIX. Hormone Action (Part D: Isolated Cells, Tissues, and Organ Systems) Edited by JOEL G. HARDMAN AND BERT W. O'MALLEY EMULOV XL. Hormone Action (Part E: Nuclear Structure and Function) Edited by BERT W. O'MALLEY AND JOEL G. HARDMAN EMULOV XLI. Carbohydrate Metabolism (Part B) Edited by W. A. DOOW EMULOV XLII. Carbohydrate Metabolism (Part C) Edited by W. A. DOOW EMULOV XLIII. Antibiotics Edited by JOHN H. HASH EMULOV XLIV. Immobilized Enzymes Edited by SUALK HCABSOM EMULOV XLV. Proteolytic Enzymes (Part B) Edited by OLZSAL DNAROL EMULOV XLVI. Affinity Labeling Edited by WILLIAM B. JAKOBY AND MEIR WILCHEK EMULOV XLVII. Enzyme Structure (Part E) Edited by C. H. W. HIRS DNA EGRES N. FEEHSAMIT EMULOV XLVIII. Enzyme Structure (Part F) Edited by C. H, W. HIRS DNA EGRES N. FFEHSAMIT EMULOV XLIX. Enzyme Structure (Part G) Edited by .C H, W. HIRS DNA EGRES N. FFEHSAMIT EMULOV L. Complex Carbohydrates (Part C) Edited by ROTCIV GRUBSNIG EMULOV LI. Purine and Pyrimidine Nucleotide Metabolism Edited by PATRICIA A. HOFFEE AND MARY ELLEN JONES EMULOV LII. Biomembranes (Part C: Biological Oxidations) Edited by SIDNEY FLEISCHER AND LESTER PACKER EMULOV LIII. Biomembranes (Part D: Biological Oxidations) Edited by SIDNEY FLEISCHER AND LESTER PACKER EMULOV LIV. Biomembranes (Part E: Biological Oxidations) Edited by SIDNI~Y FLEISCHER AND LESTER PACKER xviii METHODS NI ENZYMOLOGY EMULOV LV. Biomembranes (Part F: Bioenergetics) Edited by SIDNEY FLEISCHER DNA tESTER PACKER EMULOV LVI. Biomembranes (Part G: Bioenergetics) Edited by SIDNEY FLEISCHER DNA tESTER PACKER EMULOV LVII. Bioluminescence and Chemiluminescence Edited by ENELRAM A. DELUCA EMULOV LVIII. Cell Culture Edited by WILLIAM B. JAKOBY DNA IRA PASTAN EMULOV LIX. Nucleic Acids and Protein Synthesis (Part G) Edited by KIVIE MOLDAVE DNA LAWRENCE GROSSMAN EMULOV LX, Nucleic Acids and Protein Synthesis (Part H) Edited by KIVIE EVADLOM DNA ECNERWAL NAMSSORG EMULOV .16 Enzyme Structure (Part H) Edited by C. H. W. HIRS DNA EGRES N. FFEHSAMIT EMULOV .26 Vitamins and Coenzymes (Part D) Edited by DLANOD B. McCoRMICK DNA LEMUEL D, WRIGHT EMULOV .36 Enzyme Kinetics and Mechanism (Part A: Initial Rate and Inhibitor Methods) Edited by DANIEL n. 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Cumulative Subject Index Volumes XXXI, XXXII, XXXIV-LX Edited by EDWARD A. DENNIS DNA MARTHA G. DENNIS EMULOV 76. Hemoglobins Edited by ERALDO ANTONINI, LUIGI ROSSI-BERNARDI, DNA EMILIA ENOCNAIHC EMULOV .77 Detoxication and Drug Metabolism Edited by WILLIAM B. YBOKAJ EMULOV .87 Interferons (Part A) Edited by YENDIS AKTSEP EMULOV .97 Interferons (Part B) Edited by YENDIS AKTSEP EMULOV .08 Proteolytic Enzymes (Part C) Edited by OLZSAL DNAROL EMULOV .18 Biomembranes (Part H: Visual Pigments and Purple Mem- branes, I) Edited by RETSEL REKCAP EMULOV .28 Structural and Contractile Proteins (Part A: ExtraceUular Matrix) Edited by NOEL W. MAHGNINNUC DNA DIXIE W. NESKIREDERF EMULOV .38 Complex Carbohydrates (Part D) Edited by ROTCIV GRUBSNIG EMULOV .48 Immunochemical Techniques (Part D: Selected Immunoassays) Edited by JortN J. ENOGNAL DNA NELEH NAV SIKANUV EMULOV .58 Structural and Contractile Proteins (Part B: The Contractile Appara- tus and the Cytoskeleton) Edited by DIXIE W. 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Hormone Action (Part G: Calmodulin and Calcium-Binding Pro- teins) Edited by ANTHONY R. MEANS AND BERT W. O'MALEEY EMULOV 103. Hormone Action (Part H: Neuroendocrine Peptides) Edited by P. LEAHCIM NNOC EMULOV 104. Enzyme Purification and Related Techniques (Part C) Editedby WILLIAM B. JAKOBY EMULOV 105. Oxygen Radicals in Biological Systems Edited by RETSEL REKCAP EMULOV 106. Posttranslational Modifications (Part A) Edited by FINN WOLD AND KIVIE MOLDAVE EMULOV 107. Posttranslational Modifications (Part B) Edited by FINN WOLD AND KIVIE MOLDAVE EMULOV 108. Immunochemical Techniques (Part G: Separation and Characteriza- tion of Lymphoid Cells) Edited by GIOVANNI DI SABATO, JOHN J. LANGONE, AND HELEN VAN VUNAKIS
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