2016 Remediation of 3DEM Entries (wwPDB News)

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Remediation of 3DEM Entries in the Protein Data Bank (wwPDB News)

AutoDep, ADIT-NMR and EMDep Deposition Systems Have Been Retired, Effective September 30th 2016 (wwPDB News)

News, Aug 31, 2016 - Yorodumi Docs" /> On 15th Sep 2016, the development versions of EM Navigator and Yorodumi will replace the official versions.
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A paper regarding Molmil, a molecular viewer developed by PDBj, has been published.

wwPDB Validation Server Upgrade (wwPDB News)

PDBj has started a service to link each PDBID to the database for Intrinsic Disordered proteins, IDEAL, which is developed by Nagoya University group.

Announcement: Map Volume Deposition to EMDB Will Be Mandatory for PDB Depositions of 3DEM models Starting September 6th, 2016 (wwPDB News)

The RDF version of SIFTS is now available at our FTP site ftp://ftp.pdbj.org/RDF/sifts/. SIFTS provides various annotations of protein sequences in the PDB such as the Gene Ontology, taxonomy (biological species), structural classifications (SCOP and CATH), enzyme codes, and correspondence with UniProt sequences, and its RDF version facilitates the integration of these data with RDF data from diverse sources by using the semantic web technologies.

Deposit ORCID and Grant Information with PDB Data (wwPDB News)

Access to wwPDB and RCSB PDB websites (wwPDB News)

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AutoDep Deposition System to Be Retired, Effective August 25^th 2016. ADIT-NMR and EMDep Deposition Systems to Be Retired, Effective September 30^th 2016. (wwPDB News)

Improved Worldwide Support for wwPDB Deposition, Validation, and Annotation (wwPDB News)

Designate Depositions for the CASP-12 Structure Prediction Competition (wwPDB News)

jV 4.5.1." />

PDBj announces the bug fix update of the molecular viewer jV 4.5.1. The difference from the previous version (4.5) is that the bug fix involved in writing static image into directories without permission.

New NMR and 3DEM Validation Reports for Archived PDB Structures (wwPDB News)

Ligand Validation Workshop Paper Published (wwPDB News)

The PDBj Mine2 relational database (RDB) now integrates the summary data of SIFTS developed by PDBe and UniProt. By combining PDBj Mine2 and SIFTS, the user can easily retrieve, using SQL, various annotations of protein sequences in the PDB such as the Gene Ontology, taxonomy (biological species), structural classification (SCOP and CATH), enzyme codes, and correspondence with UniProt sequences. For more information, please refer to the help page.
Please also refer to ftp site (ftp://ftp.pdbj.org/mine2/sifts/) to integrate PDBe's SIFTS into the PDBj Mine2 database.

Zika Virus Structure Released (wwPDB News)

wwPDB Deposition, Annotation, and Validation System To Support Suppression of Entry Author Lists and Titles (wwPDB News)

AutoDep, ADIT-NMR, EMDep Deposition Systems to Be Retired, Effective September 30^th 2016 (wwPDB News)

Updated X-ray Validation Reports for Archived PDB Structures Now Available (wwPDB News)

Coming Soon: New NMR and 3DEM Validation Reports for Archived PDB Structures (wwPDB News)

The new version (4.5) of jV molecular viewer provided by PDBj is now available. From this version, it can load and save in mmCIF format for small molecules (chem_comp mmCIF).

Coming soon: Updated X-ray Validation Reports for Archived PDB Structures (wwPDB News)

wwPDB Deposition & Annotation System Now Available for NMR and 3DEM Structures (wwPDB News)

jV 4.4.5, signed with updated certification, has released. The certification used to sign jV 4.4.4 will expire on Jan. 21, 2016. After expired, it doesn't work as applet. So we recommend for all administrator of web servers that include jV applet pages to update jV to 4.4.5. To see details of the changed points, see the Release note section of the jV manual." /> The jV 4.4.5, signed with updated certification, has released. The certification used to sign jV 4.4.4 will expire on Jan. 21, 2016. After expired, it doesn't work as applet. So we recommend for all administrator of web servers that include jV applet pages to update jV to 4.4.5. To see details of the changed points, see the Release note section of the jV manual.

The Protein Globe service has been discontinued from January 2016.