| [wwPDB] CASP15 Call for Targets CASP (Critical Assessment of protein Structure Prediction) is in search for targets for the upcoming CASP15 modeling experiment (starting in May 2022). CASP community experiments aim to advance the state of the art in protein structure modeling. Every ... |
| [wwPDB] Deposition of Half-maps for Certain EM Entries Now Mandatory As announced previously, deposition of half-maps for single-particle, single-particle-based helical, and sub-tomogram averaging reconstructions to the EM Data Bank (EMDB) is mandatory as of February 25, 2022. This change is in response to a long-standing ... |
| The PDB 50th anniversary article was now released at The Journal of Biochemistry We are pleased to announce the PDB 50th anniversary article was now released at The Journal of Biochemistry. - Genji Kurisu, "Fifty years of Protein Data Bank in the Journal of Biochemistry", The Journal of Biochemistry, Volume 171, Issue 1, January ... |
| [wwPDB] Distributing PDBx/mmCIF-Formatted Assembly Files Starting May 3, 2022, the PDB archive will distribute assembly files in PDBx/mmCIF format, allowing direct access and visualization of the curated assemblies for all PDB entries. Currently, PDBx/mmCIF formatted assembly files are provided for structures ... |
| [wwPDB] Time-stamped Copies of PDB and EMDB Archives A snapshot of the PDB Core Archive (ftp://ftp.wwpdb.org) as of January 3rd, 2022 has been added to ftp://snapshots.wwpdb.org and ftp://snapshots.pdbj.org. A snapshot of the PDB Core archive (ftp://ftp.wwpdb.org) as of January 3, 2022 has been added ... |
| [wwPDB] Biocurator Milestone: >10,000 Depositions Processed RCSB PDB Biocurator Dr. Brian P. Hudson talking about the SARS-CoV-2 main protease in February 2020 Congratulations to the wwPDB biocurator Dr. Brian Hudson on processing over 10,000 PDB depositions! Dr. Hudson received his PhD in Chemistry from the ... |
| [wwPDB] Deposition of Half-maps for Certain EM Entries to Become Mandatory From February 25, 2022, deposition of half-maps for single-particle, single-particle-based helical, and sub-tomogram averaging reconstructions to the EM Data Bank (EMDB) will become mandatory. This change is in response to a long-standing community request ... |
| The announcement of PDB50 Anniversary Symposum in Asia PDBj poster prize winner PDBj successfully organized the PDB 50th Anniversary Symposium in Asia (online) on November, 24, 2021 with active participation of more than 300 international and local scientists. At the poster session, we had 78 poster presentations mainly from Asia, ... |
| [wwPDB] November Workshops on Open-Source Tools for Chemistry Join the Royal Society of Chemistry for two webinars on Protein Data Bank at 50: Accessing, Understanding, and Assessing PDB Data As part of their series of Workshops on Open-Source Tools for Chemistry, the Chemical Information and Computer ... |
| [wwPDB] Obituary for John Westbrook John Westbrook at the 2017 Congress and General Assembly of the International Union of Crystallography in Hyderabad, India John D. Westbrook Jr. (1957-2021), Research Professor at Rutgers University and Data & Software Architect Lead for the RCSB PDB, ... |
| [wwPDB] PDB Turns 50 The PDB was announced on October 20, 1971 in Crystallography: Protein Data Bank Nature New Biology 233: 223 (1971) doi: 10.1038/newbio233223b0. Today, the PDB archive contains >180,000 structures of proteins, nucleic acids, and complex assemblies that ... |
| [wwPDB] PDB50 Anniversary Symposium in Asia The symposium At the Cutting Edge of Structural Biology in Asia and Protein Data Bank's 50 Years of History will be held virtually on November 24. Register by November 8(JST) for the virtual symposium [ wwPDB News ] |
| [wwPDB] Biocurator Milestone: >10,000 Depositions Processed Congratulations to biocurators Dr. Sutapa Ghosh and Dr. Monica Sekharan on processing over 10,000 PDB depositions. They are the second and third biocurators to reach this milestone. Yumiko Kengaku reached this milestone in April 2021. Dr. Ghosh received ... |
| [wwPDB] PDBx/mmCIF data files to include PI information PI name, email, and ORCiD ID will be publicly available in PDBx/mmCIF data files starting September 24, 2021 wwPDB continues to support research, education, and drug discovery worldwide. Open access to PDB data has helped researchers in structure- ... |
| [wwPDB] Improved Access to Chemical Component Definitions and Archive Inventories Individual Chemical Component Dictionary entries and new archive inventory lists are now available for download Improved access to small molecule definitions (New tree: /pdb/refdata/) Individual Chemical Component Dictionary (CCD) and Biologically ... |
| November 24, 2021 (Wed), "PDB50 Anniversary Symposium in Asia" will be held online In commemoration of PDB's 50 year anniversary, "PDB Asia 50 Anniversary Symposium - At the Cutting Edge of Structural Biology in Asia and Protein Data Bank's 50 Years of History -" will be held with the following contents. Date November 24, 2021 (Wed) * ... |
| [wwPDB] PDB adopts a standard Creative Commons open source license CC0 1.0 Universal (CC0 1.0) Public Domain Dedication wwPDB manages the PDB Core Archives as a public good according to the FAIR Principles. In support of the FAIR objectives, wwPDB has replaced its historical data access license with a standard open ... |
| A WEB site and movies are available for “Shapes of proteins for living things – Molecules of COVID-19” A special WEB site and movies for Coronavirus 3D structure are now available. These resources are developed for the exhibition for young students called “Web Science Fiesta 2021”. The title of the resources is “Shapes of proteins for living things – ... |
| [wwPDB] wwPDB to switch to version 3 of the EMDB data model From February 9, 2022, the wwPDB EMDB Core Archive will exclusively support version 3 of its data model and retire version 1.9.6 header files from the archive. The switch will involve several changes regarding file provision by the archive and this article ... |
| PDBj FTP Archive reorganization Coinciding with the release of our updated PDBj Mine service on May 27 2021, we also released a new PDBj data archive at data.pdbj.org, thus we have a total of three archives together with ftp.pdbj.org and ftp-versioned.pdbj.org. From September 1st 2021 ... |
| [wwPDB] Extended PDB IDs and PDB DOIs now available in PDBx/mmCIF files Journals, PDB users, and software developers should review code and begin to prepare for the change in format of PDB IDs and inclusion of PDB DOIs in PDBx/mmCIF files wwPDB, in collaboration with the PDBx/mmCIF Working Group, has set plans to extend ... |
| [wwPDB] PDBx/mmCIF data files to include PI information wwPDB continues to support research, education, and drug discovery worldwide. Open access to PDB data has helped researchers in structure-guided discovery and development of anti-coronavirus drugs, vaccines and neutralizing antibodies. When researchers ... |
| [wwPDB] EMDB becomes a partner in wwPDB The Electron Microscopy Data Bank (EMDB), the public repository for electron cryo-microscopy maps and tomograms of macromolecular complexes and subcellular structures, is now an official partner in the Worldwide Protein Data Bank (wwPDB) collaboration ... |
| [wwPDB] Congratulations to Poster Prize Winners Poster Prize awardees At the inaugural PDB50 meeting, ~275 posters were presented (Abstracts Day 1 | Day 2); 209 of these presentations were considered for poster prize awards. - Best in High School: Nicholas Mamisashvili, Shelter Island High School ... |
| [wwPDB] Consistent Format for Validation and Coordinate Data wwPDB validation reports are now provided in PDBx/mmCIF format for all new depositions in OneDep. This change makes validation data more interoperable with the PDB archival format. Data are more logically and better organized in the PDBx/mmCIF reports, and ... |
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PDB entries from 2024-11-13
