THE NUCLEIC ACID DATABASE NEWSLETTER, October 2001, Volume 5, Number 1

  A Standard Reference Frame for the Description 
  of Nucleic Acid Base-Pair Geometry Published

  NDB Chapter in International Tables Published


  Standard Reference Frame Published 

The paper "A Standard Reference Frame for the Description of Nucleic
Acid Base-Pair Geometry" has been published in the Journal of
Molecular Biology (2001; 313, pp. 229 - 237).  This document is
available from the NDB at
and from the Journal of Molecular Biology.

The standardization of these parameters was the subject of the Tsukuba
Workshop on Nucleic Acid Structure and Interactions that was organized
by the NDB and the Structural Biology Centre and held at the
Structural Biology Centre in Tsukuba, Japan on January 12-14, 1999.
The meeting was funded by the COE program of the Science and
Technology Agency, Japan and the CREST program of the Japan Science
and Technology Corporation. The meeting was organized by Masashi
Suzuki of the National Institute of Bioscience and Human-Technology
and Helen M. Berman and Wilma K. Olson of the Nucleic Acid Database
Project (supported by National Science Foundation (USA).

The document was prepared and made available from the NDB for public
review and discussion.

This paper is a document of the Nomenclature Committee of IUBMB
(NC-IUBMB)/IUPAC-IUBMB Joint commission on Biochemical Nomenclature
(JCBN) whose members are R. Cammack (chairman), A. Bairoch,
H.M. Berman, S. Boyce, C.R. Cantor, K. Elliott, D. Horton,
M. Kanehisa, A. Kotyk, G.P. Moss, N. Sharon, and K.F. Tipton.

The panel that prepared this document includes Manju Bansal (Indian
Institute Science, Bangalore), Helen M. Berman (Rutgers University),
Stephen K. Burley (Rockefeller University), Richard E. Dickerson
(University of California, Los Angeles), Mark Gerstein (Yale
University), Stephen C. Harvey (University of Alabama at Birmingham),
Udo Heinemann (Max-Delbruck-Centrum), Stephen Neidle (Institute of
Cancer Research), Xiang-Jun Lu (Rutgers University), Wilma K. Olson
(Rutgers University), Zippora Shakked (Weizmann Institute), Heinz
Sklenar (Max-Delbruck-Centrum), Masashi Suzuki (AIST-NIBHT Structural
Biology Centre), Chang-Shung Tung (Los Alamos National Laboratory),
Eric Westhof (Strasbourg), and Cynthia Wolberger (Johns Hopkins
University). The survey of small molecule crystal structures was
performed by John Westbrook (Rutgers) and Helen M. Berman. The
optimization of standard base-pair geometry and the calculation of
derived parameters were carried out by Xiang-Jun Lu and Wilma K. Olson
with support from U.S.P.H.S. grant GM20861.
  NDB Chapter in International Tables Published

A chapter describing the NDB has been published in the International
Tables for Crystallography (Volume F: Crystallography of Biological
macromolecules.  Editors: M.G. Rossmann and E. Arnold, 2001.
Cordrecht: Kluwer Academic Publishers, The Netherlands).

"The Nucleic Acid Database" describes the contents of the database,
data processing procedures, and how the resource is used.

Further information about the International Tables is available from
the IUCr at

  The Nucleic Acid Database Project Members: 

Helen M. Berman, Zukang Feng, Lisa Iype, Xiang-Jun Lu, Wilma K. Olson,
Bohdan Schneider, John Westbrook and Christine Zardecki

The Nucleic Acid Database Project is funded by the 
National Science Foundation and the Department of Energy

To subscribe or unsubscribe to the NDB newsletter, send a message to