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Transition Status

Announcement: PDB Transition from BNL to RCSB

On October 1, 1998, the Research Collaboratory for Structural Bioinformatics (RCSB) became responsible for the management of the PDB. The transition of the PDB resource from Brookhaven National Laboratory to the RCSB is expected to be completed by July 1, 1999. The BNL site will be shut down on July 1, 1999.

Data Deposition and Data Processing

Since Jan 27, 1999, data deposited at the PDB has been processed by the RCSB staff using the AutoDep Input Tool (ADIT), which was developed by the RCSB. The vast majority of the structures received have been processed to completion regardless of their release status.

ADIT is available for depositing structures at http://pdb.rutgers.edu/. To deposit a structure, the user uploads the relevant coordinate and structure factor files and then adds any additional information. A session ID number is provided for depositions that occur over several sessions.

If you are in the process of a depositing a structure using BNL's AutoDep, you may complete your deposition using AutoDep at the RCSB. Depositions that are in progress were moved from BNL to RCSB so that depositors will be able to use AutoDep from the RCSB site to complete these depositions (http://www.ebi.ac.uk/pdbe-xdep/autodep/).

Query

The most prominent addition in the second phase of the RCSB PDB release schedule is the addition of the Advanced Search (SearchFields) query tool. This powerful and customizable interface provides a transparent integration of the RCSB database collection. In addition, new features have been included in the Structure Explorer pages that result from structure searches with the RCSB query tools.

A Search Unreleased query section has been added to the PDB Web site so that PDB depositors and users may search and browse unreleased entries.

A complete description of the new query features is available here.

Distribution

The PDB FTP site, in the same structure and format as at BNL, is currently available from the RCSB. The FTP site will continue to be maintained in this form so that the current BNL mirrors of will be able maintain operation. In addition, an improved RCSB FTP file structure is now available.

New mirrors of the RCSB Web and FTP sites will soon be established in Japan and the UK. More mirrors of the RCSB PDB Web and FTP sites will be added in the future.

The 1999 Third Quarter PDB CD-ROM will be produced by the RCSB.