3D Electron Microscopy (3D-EM) Data Navigator [English / [日本語]
This page is a legacy version and will be discarded in future. The new page is here.
2017-02-22: Latest structures
Other latests: New EMDB meta data, Updated EMDBs, Updated PDBs2017-02-15: Latest structures
2017-02-08: Latest structures
2017-02-01: Latest structures
2017-01-25: Latest structures
2017-01-18: Latest structures
2017-01-11: Latest structures
2017-01-04: Latest structures
2016-12-28: Latest structures
2016-12-21: Latest structures
2016-08-31: New EM Navigator & Yorodumi
On 15th Sep 2016, the development versions of EM Navigator and Yorodumi will replace the official versions. See this page for details. News, Aug 31, 2016 - Yorodumi Docs2015-12-12: New EM Navigator will come.
We have been developing the new EM Navigator.You can try the test version.2014-12-10: PDB "SPLIT" entries are replaced with "LARGE" entries. Structure data deposited as multiple PDB entries are replace with single combined entries, which were previously stored as "large structure". See here for details. In EM Navigator, many ribosome and several virus entries are replaced.2014-09-22: New service: A shape similarity search service, "Omokage search" is started.2013-03-30: New page, statistics
Resolution vs. Method, Specimen Temperature vs. Resolution, etc. may be interesting.2013-01-16: New EMDB header format
Format of the EMDB header file (XML based meta data file, not the map data themselves) are updated to version 1.9 (see here for details). Now, the contents of EM Navigator are based on the new data. Colors of some parts (e.g. bars in top area of the Detail pages) indicate 3D-reconstruction method, instead of 'aggregation states'.2012-07-23: New player and format for movies
The movie player embedded on pages is changed to jPlayer, which is a media tool using HTML5/Flash solutions and supporting various platforms including iOS and Androird. Now, distributed movies are in H.264/MPEG-4 AVC(.mp4) and WebM/VP8 (.webm) formats.2012-04-13: Distribution of movie files in "asf" and "mov" format is resumed.2012-03-07: URL of EMDB FTP server was changed
For join of EMDB data to PDB archive, the URL of the Japanese FTP server to download EMDB data was changed.
New URL: ftp://pdb.protein.osaka-u.ac.jp/pub/emdb
(Use in web browsing has no change.)2012-02-03: Currently, movie files in "asf" and "mov" format are unavailable.2011-08-15: PDB strucutre viewers replaced by movies. Now, all the EM structures of both PDB and EMDB are displayed in movies. (Please, use Yorodumi for interactive visualization)2010-08-27: Movie interface in Detail page is improved2010-07-15: Many EMDB map data are remediated. See this page for details. Currently, some movies and related data in EM Navigator are improper for the remediated data.2010-07-13: New page: Document page.2010-07-13: New page: Diagram page (beta).2010-07-02: Table page is integrated with improved List pagePDBj news