Mechanisms of Transcription: Cold Spring Harbor Symposia on Quantitative Biology

• ISBN13: 9780879695521
• ISBN10: 0879695528
• Format: Paperback
• Copyright: 1999-06-01
• Publisher: Cold Spring Harbor Laboratory Pr
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Table of Contents

Symposium Participants	p. v
Foreword	p. xix
Dedication	p. xxv
Promoter Recognition and Initiation
Transcription Regulation by Repressosome and by RNA Polymerase Contact	p. 1
RNA Polymerase-DNA Interaction: Structures of Intermediate, Open, and Elongation Complexes	p. 11
The Initiator Element: A Paradigm for Core Promoter Heterogeneity within Metazoan Proteincoding Genes	p. 21
X-ray Crystallographic Studies of Eukaryotic Transcription Factors	p. 33
Transcription in Archaea	p. 41
Polarity of Transcription on Pol II and Archaeal Promoters: Where Is the "One-way Sign" and How Is It Read?	p. 53
Transcriptional Regulation by DNA Structural Transitions and Single-stranded DNA-binding Proteins	p. 63
The DPE, a Conserved Downstream Core Promoter Element That Is Functionally Analogous to the TATA Box	p. 75
The RNA Polymerase II General Transcription Factors: Past, Present, and Future	p. 83
Ten Years of TFIIH	p. 105
Crossing the Line between RNA Polymerases: Transcription of Human snRNA Genes by RNA Polymerases II and III	p. 111
Transcription Factor IIIB: The Architecture of Its DNA Complex, and Its Roles in Initiation of Transcription by RNA Polymerase III	p. 121
Strength and Regulation without Transcription Factors: Lessons from Bacterial rRNA Promoters	p. 131
Activation
The Functional and Regulatory Roles of Sigma Factors in Transcription	p. 141
The Bacterial Enhancer-binding Protein NtrC as a Molecular Machine	p. 157
Gene Transcription by Recruitment	p. 167
Use of Artificial Activators to Define a Role for Protein-Protein and Protein-DNA Contacts in Transcriptional Activation	p. 173
Activation and the Role of Reinitiation in the Control of Transcription by RNA Polymerase II	p. 181
Cofactor Requirements for Transcriptional Activation by Sp1	p. 189
Role of General and Gene-specific Cofactors in the Regulation of Eukaryotic Transcription	p. 201
Functional Analysis of TFIID Components	p. 219
Mechanism and Regulation of Yeast RNA Polymerase II Transcription	p. 229
Functional and Structural Analysis of the Subunits of Human Transcription Factor TFIID	p. 233
Mechanisms of Viral Activators	p. 243
Cooperative Assembly of RNA Polymerase II Transcription Complexes	p. 253
RNA Polymerase
Transcription Regulation, Initiation, and "DNA Scrunching" by T7 RNA Polymerase	p. 263
Structural Studies of Escherichia coli RNA Polymerase	p. 269
Interaction of Escherichia coli [sigma superscript 70] with Core RNA Polymerase	p. 277
The Transition from Initiation to Elongation by RNA Polymerase II	p. 289
Role of RNA Polymerase II Carboxy-terminal Domain in Coordinating Transcription with RNA Processing	p. 301
Fractions to Functions: RNA Polymerase II Thirty Years Later	p. 311
Elongation and Termination
Antitermination by Bacteriophage [lambda] Q Protein	p. 319
Structure and Mechanism in Transcriptional Antitermination by the Bacteriophage [lambda] N Protein	p. 327
Mechanistic Model of the Elongation Complex of Escherichia coli RNA Polymerase	p. 337
Promoter-associated Pausing in Promoter Architecture and Postinitiation Transcriptional Regulation	p. 347
Mechanism of Promoter Escape by RNA Polymerase II	p. 357
RNA Polymerase II Elongation Control	p. 365
HIV-1 Tat Interacts with Cyclin T1 to Direct the P-TEFb CTD Kinase Complex to TAR RNA	p. 371
The Yeast RNA Polymerase III Transcription Machinery: A Paradigm for Eukaryotic Gene Activation	p. 381
Repression Mechanisms
The Regulation of Gene Activity by Histones and the Histone Deacetylase RPD3	p. 391
Targeting Sir Proteins to Sites of Action: A General Mechanism for Regulated Repression	p. 401
Activation and Repression Mechanisms in Yeast	p. 413
The Mad Protein Family Links Transcriptional Repression to Cell Differentiation	p. 423
Histone Deacetylase Directs the Dominant Silencing of Transcription in Chromatin: Association with MeCP2 and the Mi-2 Chromodomain SWI/SNF ATPase	p. 435
Gene Regulation by the Yeast Ssn6-Tup1 Corepressor	p. 447
In Vivo Functions of Histone Acetylation/Deacetylation in Tup1p Repression and Gcn5p Activation	p. 459
Chromosome Structure and Transcription
Signaling to Chromatin through Histone Modifications: How Clear Is the Signal?	p. 469
Regulation of Transcription by Multisubunit Complexes That Alter Nucleosome Structure	p. 483
TBP-associated Factors in the PCAF Histone Acetylase Complex	p. 493
Structure of the Yeast Histone Acetyltransferase Hat1: Insights into Substrate Specificity and Implications for the Gcn5-related N-acetyltransferase Superfamily	p. 501
The Establishment of Active Chromatin Domains	p. 509
Nuclear Matrix Attachment Regions Confer Long-range Function upon the Immunoglobulin [mu] Enhancer	p. 515
Remodeling Chromatin
ATP-dependent Remodeling of Chromatin	p. 525
A Model for Chromatin Remodeling by the SWI/SNF Family	p. 535
SWI/SNF Complex: Dissection of a Chromatin Remodeling Cycle	p. 545
The SAGA of Spt Proteins and Transcriptional Analysis in Yeast: Past, Present, and Future	p. 553
Specificity of ATP-dependent Chromatin Remodeling at the Yeast PH05 Promoter	p. 563
Role of Chromatin Structure and Distal Enhancers in Tissue-specific Transcriptional Regulation In Vitro	p. 569
Regulatory Complexes and Pathways
The Transcriptional Basis of Steroid Physiology	p. 577
Building Transcriptional Regulatory Complexes: Signals and Surfaces	p. 587
The Herpes Simplex Virus VP16-induced Complex: Mechanisms of Combinatorial Regulation	p. 599
Structure and Function of the Interferon-[beta] Enhanceosome	p. 609
Autoinhibition as a Transcriptional Regulatory Mechanism	p. 621
Mechanisms of Activation by CREB and CREM: Phosphorylation, CBP, and a Novel Coactivator, ACT	p. 631
Regulation of SRF Activity by Rho Family GTPases	p. 643
Summary: Three Decades after Sigma	p. 653
Author Index	p. 667
Subject Index	p. 669
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