Biological Unit: Difference between revisions

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When a structure is deposited in the [[PDB]], the authors are required to specify the biological unit if it is known. This is given in REMARK 350 in the header of the [[PDB file format]]. Unfortunately, information in REMARK 350 is often incorrect (see [https://lists.sdsc.edu/pipermail/pdb-l/2013-June/005836.html discussion of this problem by Roland Dunbrack]). There are numerous examples in which the authors state that the biological unit is a monomer in REMARK 350, but provide good experimental evidence in the paper reporting the structure that the biological unit is a dimer. Jose Duarte provided a [https://lists.sdsc.edu/pipermail/pdb-l/2013-June/005834.html list of examples].
When a structure is deposited in the [[PDB]], the authors are required to specify the biological unit if it is known. This is given in REMARK 350 in the header of the [[PDB file format]]. Unfortunately, information in REMARK 350 is often incorrect (see [https://lists.sdsc.edu/pipermail/pdb-l/2013-June/005836.html discussion of this problem by Roland Dunbrack]). There are numerous examples in which the authors state that the biological unit is a monomer in REMARK 350, but provide good experimental evidence in the paper reporting the structure that the biological unit is a dimer. Jose Duarte provided a [https://lists.sdsc.edu/pipermail/pdb-l/2013-June/005834.html list of examples].


In some cases, more than one putative biological unit is specified in REMARK 350. Biological units specified by the author(s) are distinguished from those predicted by software. An example is [[3fad]], which is explained in [http://www.pdb.org/pdb/static.do?p=education_discussion/Looking-at-Structures/bioassembly_tutorial.html Looking at Structures: Introduction to Biological Assemblies and the PDB Archive].
In some cases, more than one putative biological unit is specified in REMARK 350. Biological units specified by the author(s) are distinguished from those predicted by software. An example is [[3fad]], which is explained in [https://pdb101.rcsb.org/learn/guide-to-understanding-pdb-data/biological-assemblies Introduction to Biological Assemblies and the PDB Archive].


The most reliable way to find out the biological unit is to read the literature and/or contact experts on the molecule in question. Short of such efforts, here are some suggestions:
The most reliable way to find out the biological unit is to read the literature and/or contact experts on the molecule in question. Short of such efforts, here are some suggestions:
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