Announcement: EDMAPS.rcsb.org Shutdown

05/09 

In fall of 2024, electron density map coefficients will be available in the public PDB archive for all X-ray structures. These map coefficients will be the same as used in wwPDB Validation Reports.

The new map coefficients files will replace the electron density maps and combined map coefficient files distributed by RCSB PDB and used by the NGLviewer at RCSB.org. These data (currently served by EDMAPS.rcsb.org) are calculated using publicly-available coordinate files and structure factor files and offered in DSN6 formatted map files and MTZ formatted map coefficient files. RCSB PDB plans to shutdown the NGL viewer by July 2024 (announcement) and will no longer need the data served by EDMAPS.rcsb.org.

RCSB PDB will be phasing out EDMAPS.rcsb.org:

• June 28, 2024: DSN6-formatted map files will no longer be provided. EDMAPS.rcsb.org will only serve MTZ files with map coefficients.
• Fall 2024: Electron density map coefficients will be available in the public PDB archive for all X-ray structures. At this point, EDMAPS.rcsb.org will be shut down, including access to MTZ files with map coefficients from this service.

To help users with this transition, RCSB PDB be holding a Virtual Office Hour on Thursday June 13, 2024 from 1:00pm-2:00pm Eastern, 10:00am-11am Pacific. Please register online for this event at https://go.rutgers.edu/psx4pr63.

Register online at https://go.rutgers.edu/psx4pr63

Questions about this transition can be sent to info@rcsb.org.

New Features Index

• 05/27 Notice: NGL Viewer Deprecation

• 05/14 Switch from MMTF to BCIF

• 05/09 Announcement: EDMAPS.rcsb.org Shutdown

• 05/01 Register Now for a Webinar on Understanding PDB Validation: Which experimental structures should I rely on?

• 04/30 wwPDB News: Coming soon: Annotation of Protein Modifications in the PDB

• 04/01 Register Now for a Virtual Deep Dive into Computed Structure Model Exploration at RCSB.org

• 03/31 Explore Mechanism and Catalytic Site Annotations

• 03/29 Take the EDMAPS.rcsb.org Survey

• 03/24 Register for the April 1 Mol* Virtual Office Hour

• 03/12 wwPDB News: Paper Published on CryoEM Archiving and Validation Recommendations

• 02/25 Register for the March 28 Office Hour to Ask A Biocurator

• 02/12 Use a Python Package to Access the RCSB PDB Search API

• 01/30 Notice: NGL Viewer Deprecation

• 01/24 Take the CSM User Survey and Win

• 01/18 Undergrads: Spend your summer with RCSB PDB

• 01/15 Switch from MMTF to BCIF

• 01/08 wwPDB News: Resources for Supporting the Extended PDB ID Format (pdb_00001abc)

• 01/07 Applications Open for Director

• 01/03 wwPDB News: Time-stamped Copies of PDB and EMDB Archives