Biological Unit: Difference between revisions

Line 88:

===Unreliability of REMARK 350 in the PDB File Header===

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.wwpdb.org/empathy/thread/DNQIHDGCX3E64AJT5ABCTNFW2EJZTGAS 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.wwpdb.org/empathy/thread/~~DNQIHDGCX3E64AJT5ABCTNFW2EJZTGAS~~ 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.wwpdb.org/empathy/thread/DNQIHDGCX3E64AJT5ABCTNFW2EJZTGAS 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.wwpdb.org/empathy/thread/FNLXQHDEEHGFT7UID3WDYWUFFARTMTN7 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 [https://pdb101.rcsb.org/learn/guide-to-understanding-pdb-data/biological-assemblies Introduction to Biological Assemblies and the PDB Archive].

Biological Unit: Difference between revisions

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 88: / Line 88: @@
 ===Unreliability of REMARK 350 in the PDB File Header===
-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.wwpdb.org/empathy/thread/DNQIHDGCX3E64AJT5ABCTNFW2EJZTGAS 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.wwpdb.org/empathy/thread/DNQIHDGCX3E64AJT5ABCTNFW2EJZTGAS 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.wwpdb.org/empathy/thread/DNQIHDGCX3E64AJT5ABCTNFW2EJZTGAS 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.wwpdb.org/empathy/thread/FNLXQHDEEHGFT7UID3WDYWUFFARTMTN7 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 [https://pdb101.rcsb.org/learn/guide-to-understanding-pdb-data/biological-assemblies Introduction to Biological Assemblies and the PDB Archive].