Welcome to PDB-Dev

PDB-Dev is a prototype archiving system for structural models obtained using integrative or hybrid modeling and is funded by the NSF ABI Development Program. Structural characterization of many complex macromolecular assemblies is increasingly carried out using integrative modeling, where a combination of complementary experimental and computational techniques is used to determine the structure. The structural models obtained through integrative modeling are collected, archived and disseminated to the public through PDB-Dev. Once the mechanisms for processing integrative models are fully established through PDB-Dev, the key components will be integrated with the wwPDB OneDep system and the PDB-Dev holdings will be moved into the PDB.


Released PDB-Dev Structures

News

First 100 structures in the PDB-Dev!

We are proud to announce an important milestone for PDB-Dev - the first 100 entries are released to the public. This achievement is a result of the continued collaboration among the PDB-Dev team, members of the wwPDB IHM task force, wwPDB leadership, RCSB PDB team members, and our pioneer depositors, who were the first to realize the importance of sharing the results of integrative structural biology investigations. Read more...


First AlphaFold-based structure in PDB-Dev

For a long time, the primary sources of starting structures for integrative modeling were experimental structures from the Protein Data Bank or computational models generated using various comparative modeling approaches. The recent machine learning revolution has led to the development of modeling methods like AlphaFold2 and RoseTTAFold, and also brought a whole new universe of high-quality predicted structures of proteins. Now these structures are finally making their way into integrative modeling. Read more...


Validation Reports for Integrative Structures

Based on the recommendations of the wwPDB IHM TaskForce (Berman et al. 2019), we have developed validation reports for structures archived in PDB-Dev. The first version of the validation reports have been released on July 8th, 2022. Read more...


Updated Embargo Policy

We have updated the embargo (HOLD) policy for structures deposited to PDB-Dev. Following wwPDB policies, entries can be placed on hold for a maximum period of one year from the date of deposition. Read more...


New Deposition and Data Harvesting System

We have developed a new Deposition and Data Harvesting System that provides a web interface for depositors to assemble all the information required for archiving integrative structures in PDB-Dev, generate a compliant mmCIF file, and deposit the structure to PDB-Dev. Read more...


Supported by
National Science Foundation