Conversation 9: Proceedings

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Biological Structure and Dynamics
Volumes One and Two

The Proceedings of the Ninth Conversation held at The University-SUNY Albany, NY, June 20-24, 1995

Editors: Sarma & Sarma

ISBN 0-940030-47-0 Volume 1;
ISBN 0-940030-48-9 Volume 2;
ISBN 0-940030-46-2 2 Volume Set

Editorial Review
From Book News, Inc.
Two volumes contain 53 contributions and panel discussions from the June 1995 annual conference held at the State University of New York at Albany, covering emerging technologies and sophistications in biological structure and dynamics. A sampling of specific topics: structural analysis of the bZIP family of transcription factors; the mechanism of DNA strand exchange mediated by RecA protein; surface- dependent spontaneous denaturation and multimerization of double- stranded DNA; structural correlations for drug-DNA complexes; entry- exit of DNA in the H1-free nucleosome; the Nucleic Acid Database Project; DNA self-fitting; and DNA nanotechnology and topology. No index. Annotation c. by Book News, Inc., Portland, Or.

Biological Structure and Dynamics Volume 1

The Proceedings of the Ninth Conversation held at The University-SUNY, Albany NY, June 20-24, 1995

Sarma & Sarma

Contents Volume 1

Structure and Function of the Single-Stranded DNA Binding Proteins of the Filamentous Bacteriophages M13 and Pf3. NMR Studies
C. W. Hilbers1, R. H. A. Folmer1, M. Nilges2 and R. N. H. Konings1,
1University of Nijmegen, Nijmegen, The Netherlands and 2European Molecular Biology Laboratory, Heidelberg, Germany

A Structural Analysis of the bZIP Family of Transcription Factors: Dimerization, DNA Binding and Interactions With Other Transcription Factors
J. N. Mark Glover, Lin Chen, Gregory L. Verdine and Stephen C. Harrison,
Harvard University, Cambridge, MA

Understanding SRY Related 46X,Y Sex Reversal at the Atomic Level
G. Marius Clore, Milton H. Werner, Jeffrey R. Huth and Angela M. Gronenborn,
National Institutes of Health, Bethesda, MD

Structure of the GAL4/DNA and PPR1/DNA Complexes: DNA Recognition By Proteins That Contain a Zn2Cys6 Binuclear Cluster
Ronen Marmorstein1 and Stephen C. Harrison2,
1Univ./ PA, Philadelphia, PA and 2Harvard Univ., Cambridge, MA

Imino Proton Exchange Provides an 1H-NMR Footprint of Protein-DNA Interactions: General Strategy and Application to the SRY HMG Box
Michael A. Weiss and Chih-Yen King,
Harvard Med. School, Boston,MA

Towards an Understanding of the Mechanism of DNA Strand Exchange Mediated by RecA Protein
Mikael Kubista, Tomas Simonson, Robert Sjöback, Hans Widlund and Anders Johansson,
Chalmers Univ./Technology, Gothenburg, Sweden

Stereochemical Complementarity Between Regulatory Proteins' DNA Recognition Helix Amino Acids and Codon-Anticodon Nucleotides Within Their Cognate DNA Binding Sites: A Code For Site Specific DNA Recognition
Lester F. Harris, Michael R. Sullivan, Pamela D. Popken-Harris and David F. Hickok,
Abbott Northwestern Hosp. Cancer Research Lab., Minneapolis, MN

Structural Consequences of Two Methyl Additions in the E. Coli trp Repressor L-tryptophan Binding Pocket
Catherine L. Lawson,
Brookhaven National Lab., Upton, NY

DNA-Binding By Heat Shock Transcription Factors
Geerten W. Vuister1, Ronald M. A. Knegtel2 and Edith Gincel1,
1Utrecht Univ., Utrecht, The Netherlands and 2Univ./Groningen, Groningen, TheNetherlands

Some Energetic and Kinetic Aspects of Protein-DNA Interactions: A Theoretical Study on the l Repressor-Operator Complex
B. Jayaram,
Indian Inst./Technology, New Delhi, India

Structural Variations Observed in DNA Crystal Structures and Their Implications For Protein-DNA Interaction
Manju Bansal,
Indian Inst./Science, Bangalore, India

Indirect Effects of DNA Sequence on Protein-DNA Interactions
Gerald B. Koudelka, Adam C. Bell and Shannon P. Hilchey,
SUNY at Buffalo, Buffalo, NY

Scanning Force Microscopy of Chromatin Fibers: A New Approach to an Old Problem
Guoliang Yang, Sanford H. Leuba and Carlos Bustamante,
Univ./OR, Eugene, OR

Interactions of Histone H1 With DNA: Model Studies
Jordanka Zlatanova1,2, Julia Yaneva1,2, Maria Ivanchenko1,2, Patrick Varga- Weisz1, Gary P. Schroth1 and Kensal van Holde1,
1OR State Univ., Corvallis, OR and 2Bulgarian Academy of Sciences, Sofia,Bulgaria

Entry-exit of DNA in the H1-free Nucleosome
Patrick Furrer and Jan Bednar,
Univ. de Lausanne, Dorigny, Switzerland

Glycine Protection Effect in DNA and Chromatin Precipitations
Stéphane Flock,
University of Liége, Liége, Belgium

High Frequency of Mutational Changes During the Cloning of a Human Centromeric Repeat
Ellen T. Peterson, Deborah L. Grady and Robert K. Moyzis,
Los Alamos Nat. Lab., Los Alamos, NM

Structural Studies of Type I DNA Topoisomerases
C. D. Lima1, N. Lue2, A. Patera1, A. Sharma1 and A. Mondragón1,
1Northwestern Univ., Evanston, IL and 2Harvard Univ.,Cambridge, MA

Stability and Specificity of Coiled Coils: Extending the Interface into the bZIP Basic Region
Charles Vinson, Michelle Olive, Irina Mikhailenko and Dmitry Krylov,
National Institutes of Health, Bethesda, Maryland

The Active Site of p21 ras: Conformational Changes Induced by the Binding of Nucleotides
Christopher J. Halkides1, Christian T. Farrar2, Alfred G. Redfield1 and David J. Singel3,
1Brandeis Univ., Waltham, MA, 2Harvard Univ., Cambridge MA, and 3MO State University, Bozeman MO

Segments, Folds and Overall Protein Structure
Eugene Kolker and Edward N. Trifonov,
The Weizmann Inst./Science,Rehovot, Israel

Hinge-Bending at Molecular Interfaces: Automated Docking of a Dihydro-xyethylene-Containing Inhibitor to the HIV-1 Protease
Bilha Sandak1, Haim J. Wolfson1 and Ruth Nussinov2,
1Tel Aviv Univ., Tel Aviv, Israel, and 2NCI-FCRF, Frederick, MD

Diffusion of a Protein in Configuration Space
Angel E. García, Raphael Blumenfeld, Gerhard Hummer and Jorge Sobehart,
Los Alamos Nat. Lab., Los Alamos, NM

Conformational Relaxation and Ligand Binding in Heme Proteins
G. Ulrich Nienhaus, Kelvin Chu, Benjamin McMahon and Joachim D. Müller,
Univ./Illinois at Urbana-Champaign, Urbana, IL

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