The static version of the PDBj web pages for old-type browsers has been updated.

Please refer to wwPDB New Deposition and Annotation System at wwPDB site.

Please refer to wwPDB New Deposition and Annotation System-Frequently Asked Questions at wwPDB site.

New version of jV (4.4.4), fixed the bug involved in the polygon display in Windows, was released. http://pdbj.org/jv/

The wwPDB Symposium "Integrative Structural Biology with Hybrid Methods" will be held at Osaka University Hall on October 3, 2015 (more...)

Phased PDB Release Process (wwPDB News)

Data correspondences between the PDB and CSD archives now available (wwPDB News)

Q) Is there any chance that the deposited information could leak out from the PDB before release? A) The deposited data is managed under strict security constraints during the annotation process. There is no need for concern regarding data leaking out. ...

Searching The PDBj Chemie service provides additional insights to non-protein and non-nucleotide compounds found in PDB entries. These compounds can be searched using the PDBj Chemie Search service: PDBj Chemie Search service Here you can search via the ...

Hybrid/Integrative Methods Paper Published (wwPDB News)

wwPDB Deposition Tool Replaces ADIT for Crystal Structures As announced on January 27, 2015, ADIT will be retired on July 19, 2015 for structures determined using X-ray crystallography. Any in-progress ADIT X-ray deposition sessions need to be ...

Q) How can I tell whether a PDB entry type is non-PDB format compatible or not? A) You can tell by referring to the pdbx_database_status.pdb_format_compatible field in PDBx/mmCIF or PDBML files, or using the CIF query or SQL search services to extract ...

Data Deposition Information for more details." /> New wwPDB Deposition system is now available at PDBj website. Please see Data Deposition Information for more details.

- Basic Usage - Data Format - jV - Sequence Navigator - Structure Navigator - ASH - eF-site - eF-surf - eF-seek - eProtS - Protein Globe - Data Deposition Information

Phased PDB Release Process (wwPDB News)

We start a Molmil service to display eF-site electrostatic molecular surfaces.

About theoretical models. Theoretical models PDBIDTitleAuthors 163dA THREE-DIMENSIONAL MODEL OF THE REV BINDING ELEMENT OF HIV- 1 DERIVED FROM ANALYSES OF IN VITRO SELECTED VARIANTS F.LECLERC,R.J.CEDERGREN,A.D.ELLINGTON DisplayDownload 1a20MOLECULAR ...

PDBj has released the electron density maps in the ccp4 format. The ccp4 formatted file of each entry is downloaded from Electron Density Map page through http protocol. The ccp4 formatted files of all entries that have Electron Density Maps are also ...

Changes to the Release Process for PDB Entries (wwPDB News)

Theoretical Models The PDB separated theoretical model coordinate files from the main archive beginning July 1, 2002. After that date, the main archive has consisted of structures determined using experimental methods only. Theoretical models are only ...

Q) Where can I download the data such as CSA, mentioned in theFunctional Detailspage? A) Functional Details is additional information extracted by PDBj and not contained in the PDBML file. The information is contained in the PDBMLplus file, which is ...

Beginning at 9:00 a.m. on January 27, 2015 (JST), ADIT deposition system no longer accepts new submissions of crystal structures. Crystal structures should be submitted using the wwPDB Deposition Tool. ADIT will be available for users to finalize in- ...

Beginning at 9:00 a.m. on January 27, 2015 (JST) crystal structures should be submitted using the wwPDB Deposition Tool. ADIT will continue to accept depositions from other experimental methods, such as NMR or Electron Microscopy. wwPDB launched the ...

The jV 4.4.2 is now released. Although there is no change in function, the signature is updated. The certificate used for signing to jV 4.4.1 will expire on 21th Dec. 2014, so you need update the jV to 4.4.2 if you use jV as applet. For stand alone jV, ...

Due to the size of the large structures, they are not compatible with the legacy pdb format. For this reason these entries are only released using the PDBx/mmCIF and PDBML formats. However, since many legacy software still cannot properly load the PDBx/ ...