Elsevier S & T

RNA Polymerase and Associated Factors, Part C

Adhya, Sankar; Garges, Susan

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Table of contents

Title Pageiii
Copyright Pageiv
Table of Contentsv
Contributors to Volume 370xi
Prefacexix
Volumes in Seriesxxi
Section I: RNA Polymerase Structure and Properties1
Chapter 1. Construction, Purification, and Characterization of Escherichia coli RNA Polymerases Tagg3
Chapter 2. Purification of Bacillus subtilis Polymerase and Associated Factors10
Chapter 3. Determination of Escherichia coli RNA Polymerase Structure by Single Particle Cryoelectro24
Chapter 4. Crystallographic Analysis of Thermus aquaticus RNA Polymerase Holoenzyme and a Holoenzyme42
Chapter 5. Purification of Rhodobacter sphaeroides RNA Polymerase and Its Sigma Factors54
Chapter 6. In Vitro Transcription Assays Using Components from Methanothermobacter thermautotrophicu66
Chapter 7. Isolation and Characterization of Streptomyces coelicolor RNA Polymerase, Its Sigma, and73
Chapter 8. Bacteriophage N4-Coded, Virion- Encapsulated DNA-Dependent RNA Polymerase83
Chapter 9. Preparation and Characterization of Recombinant Thermus aquatics RNA Polymerase94
Chapter 10. Purification and Assay of Upstream Activation Factor, Core Factor, Rrn3p, and Yeast RNA109
Chapter 11. Purification and Transcriptional Analysis of RNA Polymerase I Holoenzymes from Broccoli121
Chapter 12. Assays and Affinity Purification of Biotinylated and Nonbiotinylated Forms of Double-Tag138
Chapter 13. Dephosphorylation of the Carboxyl-Terminal Domain of RNA Polymerase II155
Chapter 14. RNA Polymerase III from the Fission Yeast, Schizosaccharomyces pombe165
Chapter 15. Purification of Highly-Active and Soluble Escherichia coli 70 Polypeptide Overproduced174
Chapter 16. Expression, Purification of, and Monoclonal Antibodies to Factors from Escherichia col181
Chapter 17. Studying Sigma–Core Interactions in Escherichia coli RNA Polymerase by Electrophoretic192
Chapter 18. Assay of Escherichia coli RNA Polymerase: Sigma–Core Interactions206
Chapter 19. Purification and Characterization of Bacteriophage-Encoded Inhibitors of Host RNA Polyme212
Section II: Analyses of Promoter and Transcription Patterns227
Chapter 20. A Procedure for Identifying Loosely Conserved Protein-Binding DNA Sequences229
Chapter 21. Computational Detection of Vertebrate RNA Polymerase II Promoters237
Chapter 22. Detection of DNA-Binding Helix-Turn-Helix Motifs in Proteins Using the Pattern Dictionar250
Chapter 23. DNA Microarrays and Bacterial Gene Expression264
Chapter 24. Analysis of Microarray Data for the marA, soxS, and rob Regulons of Escherichia coli278
Section III: Polymerase Associated Factors281
Chapter 25. Purification and Activity Assays of RapA, the RNA Polymerase-Associated Homolog of the S283
Chapter 26. Escherichia coli Proteins Eluted from Mono Q Chromatography, a Final Step During RNA Pol291
Chapter 27. Techniques for Studying the Oxygen-Sensitive Transcription Factor FNR from Escherichia c300
Chapter 28. Assay of Transcription Modulation by Spo0A of Bacillus subtilis312
Chapter 29. Assay of Prokaryotic Enhancer Activity over a Distance In Vitro324
Chapter 30. DnaA as a Transcription Regulator338
Chapter 31. Analysis of Transcription Factor Interactions at Sedimentation Equilibrium349
Chapter 32. Single-Molecule Studies of DNA Architectural Changes Induced by Regulatory Proteins369
Chapter 33. Assay of an Intrinsic Acetyltransferase Activity of the Transcriptional Coactivator CIIT378
Chapter 34. Purification and Assay of Saccharomyces cerevisiae Phosphatase That Acts on the C-Termin386
Chapter 35. Functional Analysis of Transcription Factors CREB and CREM396
Chapter 36. Functional Analysis of TFIID Components Using Conditional Mutants415
Chapter 37. Immunoaffinity Purification of Mammalian Protein Complexes430
Chapter 38. Interaction of Gal4p with Components of Transcription Machinery In Vivo445
Chapter 39. Dominant-Negative Mutants of Helix-Loop- Helix Proteins: Transcriptional Inhibition454
Chapter 40. Purification and Transcription Repression by Negative Cofactor 2467
Chapter 41. Hap1p Photofootprinting as an In Vivo Assay of Repression Mechanism in Saccharomyces479
Chapter 42. Analysis of Activator-Dependent Transcription Reinitiation In Vitro487
Section IV: Transcription Initiation503
Chapter 43. Molecular Analysis of Activator Engagement with RNA Polymerase505
Chapter 44. Purification and Protein Interaction Assays of the VP16C Transcription Activation Domain522
Chapter 45. Rapid Quench Mixing to Quantify Kinetics of Steps in Association of Escherichia coli RNA535
Chapter 46. Determination of RNA Polymerase Binding and Isomerization Parameters by Measuring Aborti546
Chapter 47. Probing the Role of Region 2 of Escherichia coli 70 in the Nucleation and Maintenance o553
Chapter 48. On the Use of 2-Aminopurine as a Probe for Basepair Opening During Transcription Initiat568
Chapter 49. Single-Molecule DNA Nanomanipulation: Detection or Promoter-Unwinding Events by RNA Poly577
Chapter 50. Simple Fluorescence Assays Probing Conformational Changes of Escherichia coli RNA Polyme598
Chapter 51. Measuring Control of Transcription Initiation by Changing Concentrations of Nucleotides606
Chapter 52. Identification of Promoters of Escherichia coli and Phage in the Transcription Section P618
Chapter 53. Enhancer-Dependent Transcription by Bacterial RNA Polymerase: The Subunit Downstream Lo646
Chapter 54. Mutational Analysis and Structure of the Phage SP6 Promoter658
Chapter 55. Fluorescence Methods for Studying the Kinetics and Thermodynamics of Transcription Initi668
Chapter 56. In Vitro Studies of the Early Steps of RNA Synthesis by Human RNA Polymerase II687
Chapter 57. Site-Specific Protein-DNA Photocross-Linking of Purified Complexes: Topology of the RNA701
Chapter 58. Assay of Promoter Melting and Extension of mRNA: Role of TFIIH Subunits713
Chapter 59. Assays for Investigating the Mechanism of Promoter Escape by RNA Polymerase II733
Author Index741
Subject Index773

Book details

Vendor Elsevier S & T
SKU 9780121822736
ISBN-13 9780080522593
Author Adhya, Sankar; Garges, Susan
Category Science
Subject Biochemistry

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RNA polymerase is molecule important to gene transcription. Along with associated factors, RNA polymerase is part of the process in which RNA is transcribed to produce a protein.

* Construction and purification of RNA polymerases
* DNA microarrays and bacterial gene expression
* Functional analysis of transcription factors

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