Atomic coordinate file: Difference between revisions
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In February, 2019, the [[wwPDB]] announced that new depositions must be in the mmCIF format beginning July 1, 2019<ref name="endOfPDBFormat">[https://lists.sdsc.edu/pipermail/pdb-l/2019-February/006209.html Mandatory PDBx/mmCIF format files submission for MX depositions]: posted on the PDB email list Feb 20, 2019 by Jasmine Young, Biocuration Team Lead, RCSB PDB. The wwPDb website also posted [http://www.wwpdb.org/news/news?year=2019#5c6ad3c5ea7d0653b99c8766 this document].</ref>. The PDB sometimes refers to the mmCIF format as "PDBx", which should not be confused with the original legacy PDB format. | In February, 2019, the [[wwPDB]] announced that new depositions must be in the mmCIF format beginning July 1, 2019<ref name="endOfPDBFormat">[https://lists.sdsc.edu/pipermail/pdb-l/2019-February/006209.html Mandatory PDBx/mmCIF format files submission for MX depositions]: posted on the PDB email list Feb 20, 2019 by Jasmine Young, Biocuration Team Lead, RCSB PDB. The wwPDb website also posted [http://www.wwpdb.org/news/news?year=2019#5c6ad3c5ea7d0653b99c8766 this document].</ref>. The PDB sometimes refers to the mmCIF format as "PDBx", which should not be confused with the original legacy PDB format. | ||
In December, 2023, the [[wwPDB]] announced that all 3-character ligand ID codes had been exhausted <ref name="nomore3s">[https://www.wwpdb.org/news/news?year=2023#656f4404d78e004e766a96c6 PDB Entries with Novel Ligands Now Distributed Only in PDBx/mmCIF and PDBML File Formats], wwPDB News, December 12, 2023.</ref>. Thereafter, new entries with novel ligands will be available only in mmCIF format, since the legacy PDB format cannot accommodate the new 5-character ligand IDs. | In December, 2023, the [[wwPDB]] announced that all 3-character ligand ID codes had been exhausted <ref name="nomore3s">[https://www.wwpdb.org/news/news?year=2023#656f4404d78e004e766a96c6 PDB Entries with Novel Ligands Now Distributed Only in PDBx/mmCIF and PDBML File Formats], wwPDB News, December 12, 2023.</ref>. Thereafter, new entries with novel ligands will be available only in mmCIF format, since the legacy PDB format cannot accommodate the new 5-character ligand IDs. Examples that use 5-character ligand IDs: [[8rox]] has [https://www.rcsb.org/ligand/A1H17 A1H17]; [[8vkz]] has [https://www.rcsb.org/ligand/A1ACE A1ACE]. | ||
In 2024, the [[wwPDB]] estimates that all 4-character [[PDB ID code]]s will be consumed by 2029<ref name="spring2024">[https://cdn.rcsb.org/rcsb-pdb/general_information/news_publications/newsletters/2024q2/deposit.html#two Resources for Supporting the Extended PDB ID Format (pdb_00001abc)], Spring 2024 Issue of the RCSB PDB Newsletter.</ref>. Thereafter, new entries will be available only in mmCIF format using [[PDB_identification_code#Future_Plans_for_Expanded_PDB_Codes|12-character ID codes]]. | In 2024, the [[wwPDB]] estimates that all 4-character [[PDB ID code]]s will be consumed by 2029<ref name="spring2024">[https://cdn.rcsb.org/rcsb-pdb/general_information/news_publications/newsletters/2024q2/deposit.html#two Resources for Supporting the Extended PDB ID Format (pdb_00001abc)], Spring 2024 Issue of the RCSB PDB Newsletter.</ref>. Thereafter, new entries will be available only in mmCIF format using [[PDB_identification_code#Future_Plans_for_Expanded_PDB_Codes|12-character ID codes]]. | ||
