MESSAGE FROM THE RCSB PDB
The RCSB PDB attended a variety of meetings this past quarter to
demonstrate the use of RCSB tools (such as pdb_extract for structure
deposition) and the reengineered RCSB PDB site and database (which is
still undergoing beta testing at pdbbeta.rcsb.org).
Special events at these meetings were also organized by the RCSB:
* Together with CCP4, a session aimed at depositors entitled "A
Protein Crystallographic Toolbox: CCP4 Software Suite and RCSB PDB
Deposition Tools" was held at the American Crystallographic
Association's Annual Meeting (ACA; July 17-22; Chicago,
IL). Presentations including "An Introduction to the CCP4 Software
Suite", "pdb_extract and CCP4: Making Deposition Easier", and
"Validation and Deposition at the RCSB Protein Data Bank" can be
downloaded from www.ccp4.ac.uk/courses/ACA2004/ACAworkshop04.html.
Also at the ACA meeting, RCSB PDB, CCP4, and CCDC formed a "Data
Alley" with these groups next to each other in the exhibition hall.
* On September 10, the "Database Challenges in Biology" symposium at
CARB brought together experts in biological data management to
describe how data are organized in ways to enable scientists to derive
new knowledge about structure and function. Special thanks goes to
the speakers at this event -- Stephen Bryant (Conserved Domain
Database: A Protein Family Database), Wah Chiu (Database for
Cryo-Electron Microscopy), Mark Ellisman (Multi-scale Imaging and
Databasing of the Nervous System with Advanced Cyberinfrastructure),
John Johnson (VIrus Particle ExploreR (VIPER): a Database of
Standardized Atom Coordinates for Icosahedral Viruses and Derived
Descriptions of Subunit Interactions), John Markley (Data Management
in the Laboratory: User Facilities and Research on Small and Large
Scales), Cathy Wu (PIR Integrated Bioinformatics for Functional
Genomics and Proteomics), and Helen M. Berman (The RCSB Protein Data
Bank: An Integrated Resource for Structural Biology).
This newsletter looks at other presentations from this quarter,
including the 3D SIG and ISMB/ECCB meeting and a report on the
workshop for high school students and teacher "X-rays, Molecules, and
|Some members from RCSB and CCP4 at "A Protein Crystallographic Toolbox: CCP4 software Suite and RCSB PDB Deposition Tools"