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Ubiquitin and protein degradation. Part B /
Ubiquitin and Protein Degradation, Part B will cover chemical biology, ubiquitin derivatives and ubiquitin-like proteins, deubiquitinating enzymes, proteomics as well as techniques to monitor protein degradation. The chapters are highly methodological and focus on application of techniques. *Second...
| Clasificación: | Libro Electrónico |
|---|---|
| Otros Autores: | |
| Formato: | Electrónico eBook |
| Idioma: | Inglés |
| Publicado: |
San Diego :
Elsevier Academic Press,
2005.
|
| Colección: | Methods in enzymology ;
vol. 399. |
| Temas: | |
| Acceso en línea: | Texto completo Texto completo |
Tabla de Contenidos:
- 1. Chemical and Genetic Strategies for Manipulating Polyubiquitin Chain Structure
- SARA VOLK, MIN WANG, AND CECILE M. PICKART
- 2. Controlled Synthesis of Polyubiquitin Chains
- CECILE M. PICKART AND SHAHRI RAASI
- 3. Derivitization of the C-Terminus of Ubiquitin and Ubiquitin-Like Proteins Using Intein Chemistry: Methods and Uses
- KEITH D. WILKINSON, TUDEVIIN GAN-ERDENE, AND NAGAMALLESWARI KOLLI
- 4. Preparation, Characterization, and Use of Tagged Ubiquitins
- JUDY CALLIS AND RICHARD LING
- 5. Knocking out Ubiquitin Proteasome System Function In Vivo and In Vitro with Genetically Encodable Tandem Ubiquitin
- Y. SAEKI, E. ISONO, M. SHIMADA, H. KAWAHARA, H. YOKOSAWA, AND A. TOH-E
- 6. Production of Antipolyubiquitin Monoclonal Antibodies and Their Use for Characterization and Isolation of Polyubiquitinated Proteins
- MASAHIRO FUJMURO AND HIDEYOSHI YOKOSAWA
- 7. Application of Ubiquitin Immunohistochemistry to Diagnosis of Disease
- JAMES LOWE, NEIL HAND, AND JOHN MAYER
- 8. Mechanism-Based Proteomics Tools Based on Ubiquitin and Ubiquitin-Like Proteins: Crystallography, Activity Profiling, and Protease Identification
- PAUL J. GALARDY, HIDDE L. PLOEGH, AND HUIB OVAA
- 9. Identification and Characterization of Modular Domains That Bind Ubiquitin
- MICHAEL FRENCH, KURT SWANSON, SUSAN C. SHIN, ISHWAR RADHAKRISHNAN, AND LINDA HICKE
- 10. Analysis of Ubiquitin Chain-Binding Proteins by Two-Hybrid Methods
- JENNIFER APODACA, JUNGMI AHN, IKJIN KIM, AND HAI RAO
- 11. Quantifying Protein Protein Interactions in the Ubiquitin Pathway by Surface Plasmon Resonance
- RASMUS HARTMANN-PETERSON AND COLIN GORDON
- 12. Using NMR Spectroscopy to Monitor Ubiquitin Chain Conformation and Interactions with Ubiquitin-Binding Domains
- RANJANI VARADAN, MICHAEL ASSFALG, AND DAVID FUSHMAN
- 13. Analysis of Ubquitin-Dependent Protein Sorting Within the Endocytic Pathway in Saccharomyces cerevisiae
- DAVID J. KATZMANN AND BEVERLY WENDLAND
- 14. Preparation of Ubiquitinated Substrates by the PY Motif-Insertion Method for Monitoring 26S Proteasome Activity
- Y. SAEKI, E. ISONO, AND A. TOH-E
- 15. Large- and Small-Scale Purification of Mammalian 26S Proteasomes
- YUKO HIRANO, SHIGEO MURATA, AND KEIJI TANAKA
- 16. Is This Protein Ubiquitinated?
- PETER KAISER AND CHRISTIAN TAGWERKER
- 17. Experimental Tests to Definitively Determine Ubiquitylation of a Substrate
- JOANNA BLOOM AND MICHELE PAGANO
- 18. Identification of Ubiquitination Sites and Determination of Ubiquitin-Chain Architectures by Mass Spectrometry
- PETER KAISER AND JAMES WOHLSCHLEGEL
- 19. Mapping of Ubiquitination Sites on Target Proteins
- SHIGETSUGU HATAKEYAMA, MASAKI MATSUMOTO, AND KEIICHI I. NAKAYAMA
- 20. Identification of Substrates for F-Box Proteins
- JIANPING JIN, XIAOLU L. ANG, TAKAHIRO SHIROGANE, AND J. WADE HARPER
- 21. Fusion-Based Strategies to Identify Genes Involved in Degradations of a Specific Substrate
- RANDOLPH Y. HAMPTON
- 22. Bi-Substrate Kinetic Analysis of an E3-Ligase-Dependent Ubiquitylation Reaction
- DAVID C. SWINNEY, MICHAEL J. ROSE, AMY Y. MAK, INA LEE, LILIANA SCARAFIA, AND YI-ZHENG XU
- 23. Screening of Tissue Microarrays for Ubiquitin Proteasome System Components in Tumors
- NORMAN L. LEHMAN, MATT VAN DE RIJN, AND PETER K. JACKSON
- 24. Structure-Based Approaches to Create New E2-E3 Enzyme Pairs
- G. SEBASTIAN WINKLER AND H. TH. MARC TIMMERS
- 25. Proteomic Analysis of Ubiquitin Conjugates in Yeast
- JUNMIN PENG AND DONGMEI CHENG
- 26. Two-Step Affinity Purification of Multiubiquitylated Proteins from Saccharomyces cerevisiae
- THIBAULT MAYOR AND RAYMOND J. DESHAIES
- 27. Identification of SUMO-Protein Conjugates
- MEIK SACHER, BORIS PFANDER, AND STEFAN JENTSCH
- 28. Identification of Ubiquitin Ligase Substrates by In Vitro Expression Cloning
- NAGI G. AYAD, SUSANNAH RANKIN, DANNY OOI, MICHAEL RAPE, AND MARC W. KIRSCHNER
- 29. In Vitro Screening for Substrates of the N-End Rule-Dependent Ubiquitylation
- ILIA V. DAVYDOV, JOHN H. KENTEN, YASSAMIN J. SAFIRAN, STEFANIE NELSON, RYAN SWENERTON, PANKAJ OBEROI, AND HANS A. BIEBUYCK
- 30. Genome-Wide Surveys for Phosphorylation-Dependent Substrates of SCF Ubiquitin Ligases
- XIAOJING TANG, STEPHEN ORLICKY, QINGQUAN LIU, ANDREW WILLEMS, FRANK SICHERI, AND MIKE TYERS
- 31. Yeast Genomics in the Elucidation of Endoplasmic Reticulum (ER) Quality Control and Associated Protein Degradation (ERQD)
- ANTJE SCHAFER AND DIETER H. WOLF
- 32. Mechanism-Based Proteomics Tools Based on Ubiquitin and Ubiquitin-Like Proteins: Synthesis of Active-Site Directed Probes
- HUIB OVAA, PAUL J. GALARDY, AND HIDDE L. PLOEGH
- 33. Application and Analysis of the GFP Family of Ubiquitin-Proteasome System Reporters
- NEIL F. BENCE, ERIC J. BENNETT, AND RON R. KOPITO
- 34. Monitoring of Ubiquitin-Dependent Proteolysis with Green Fluorescent Protein Substrates
- VICTORIA MENENDEZ-BENITO, STIJN HEESSEN, AND NICO P. DANTUMA
- 35. Monitoring Proteasome Activity In Cellulo and in Living Animals by Bioluminescent Imaging: Technical Considerations for Design and Use of Genetically Encoded Reporters
- SHIMON GROSS AND DAVID PIWNICA-WORMS
- 36. Bioluminescent Imaging of Ubiquitin Ligase Activity: Measuring Cdk2 Activity In Vivo Through Changes in p27 Turnover
- GUO-JUN ZHANG AND WILLAM G. KAELIN, JR.
- 37. Monitoring the Distribution and Dynamics of Proteasomes in Living Cells
- TOM A.M. GROOTHUIS AND ERIC A.J. REITS
- 38. Identifying Small Molecules Inhibitors of the Ubiquitin-Proteasome Pathway in Xenopus Egg Extracts
- ADRIAN SALIC AND RANDALL W. KING
- 39. Development and Characterization of Proteasome Inhibitors
- KYUNG BO KIM, FABIANA N. FONSECA, AND CRAIG M. CREWS
- 40. Screening for Selective Small Molecule Inhibitors of the Proteasome Using Activity-Based Probes
- MATTHEW BOGYO
- 41. Development of E3-Substract (MDM2-p53)-Binding Inhibitors: Structural Aspects
- DAVID C. FRY, BRADFORD GRAVES, AND LYUBOMIR T. VASSILEV
- 42. Druggability of SCF Ubiquitin Ligase-Protein Interfaces
- TIMOTHY CARDOZO AND RUBEN ABAGYAN
- 43. Overview on Approaches for Screening for Ubiquitin Ligase Inhibitors
- YI SUN
- 44. A Homogeneous FRET Assay System for Multiubiquitin Chain Assembly and Disassembly
- TARIKERE L. GURURAJ, TODD R. PRAY, RAYMOND LOWE, GUOQIANG DONG, JIANING HUANG, SARKIZ DANIEL-ISSAKANI, AND DONALD G. PAYAN
- 45. Assays for High-Throughput Screening of E2 and E3 Ubiquitin Ligases
- JOHN H. KENTEN, ILIA V. DAVYDOV, YASSAMIN J. SAFIRAN, DAVID H. STEWART, PANKAJ OBEROI, AND HANS A. BIEBUYCK
- 46. Quantitative Assays for Mdm2 Ubiquitin Ligase Activity and Other Ubiquitin-Utilizing Enzymes for Inhibitor Discovery
- KURT R. AUGER, ROBERT A. COPELAND, AND ZHIHONG LAI
- 47. High-Throughput Screening for Inhibitors of the Cks1-Skp2 Interaction
- KUO-SEN HUANG AND LYUBOMIR T. VASSILEV
- 48. In Vitro SCFb-Trcp1-Mediated IKBa Ubiquitination Assay for High-Throughput Screen
- SHUICHAN Xu, PALKA PATEL, MAHAN ABBASIAN, DAVID GIEGEL, WEILIN XIE, FRANK MERCURIO, AND SARAH COX
- 49. High-Throughput Screening for Inhibitors of the E3 Ubiquitin Ligase APC
- JIANING HUANG, JULIE SHEUNG, GUOQIANG DONG, CHRISTINA COQUILLA, SARKIZ DANIEL-ISSAKANI, AND DONALD G. PAYAN
- 50. The Split-Ubiquitin Sensor: Measuring Interactions and Conformational Alterations of Proteins In Vivo
- CHRISTOPH REICHEL AND NILS JOHNSSON
- 51. Ubiquitin Fusion Technique and Related Methods
- ALEXANDER VARSHAVSKY
- 52. Heat-Inducible Degron and the Making of Codintional Mutants
- R. JURGEN DOHMEN AND ALEXANDER VARSHAVSKY
- 53. Ectopic Targeting of Substrates to the Ubiquitin Pathway
- JIANXUAN ZHANG AND PENGBO ZHOU
- 54. Chimeric Molecules to Target Proteins for Ubiquitination and Degradation
- KATHLEEN M. SAKAMOTO.