Biological Unit: Difference between revisions

Line 12:

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

Atomic coordinates for biological units, when specified by the authors of a published structure in REMARK 350 of the [[PDB file format]], are available from the [[Protein Data Bank]]. ~~When this was last updated (~~February, 2010), "biological assemblies" were available at the bottom of the list under ''Download Files'' (upper right, near the large [[PDB code]]). One technical problem with the files from RCSB is that when they contain more than one copy of the asymmetric unit, the chains all have identical names. Also, the additional copies are in separate models, which in some cases complicates visualization.

Biological units may be specified in REMARK 350 of the [[PDB file format]]. In some cases, more than one putative biological unit is specified, and downloadable from the [[Protein Data Bank]]. 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].

Atomic coordinates for biological units, when specified by the authors of a published structure in REMARK 350 of the [[PDB file format]], are available from the [[Protein Data Bank]]. As of February, 2010, "biological assemblies" were available at the bottom of the list under ''Download Files'' (upper right, near the large [[PDB code]]).

One technical problem with the files from RCSB is that when they contain more than one copy of the asymmetric unit, the chains all have identical names. Also, the additional copies are in separate models, which in some cases complicates visualization.

Sometimes, the specific oligomers were not known at the time the asymmetric unit was published. Also, some authors failed to specify the biological unit even when it was known. Rarely, the specified biological units might be incorrect. For all these reasons, it is advisable to consult sources other than REMARK 350.

Biological Unit: Difference between revisions

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 12: / Line 12: @@
 ===REMARK 350 in the PDB File Header===
-Atomic coordinates for biological units, when specified by the authors of a published structure in REMARK 350 of the [[PDB file format]], are available from the [[Protein Data Bank]]. When this was last updated (February, 2010), &quot;biological assemblies&quot; were available at the bottom of the list under ''Download Files'' (upper right, near the large [[PDB code]]). One technical problem with the files from RCSB  is that when they contain more than one copy of the asymmetric unit, the chains all have identical names. Also, the additional copies are in separate models, which in some cases complicates visualization.
+Biological units may be specified in REMARK 350 of the [[PDB file format]]. In some cases, more than one putative biological unit is specified, and downloadable from the [[Protein Data Bank]]. 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].
+Atomic coordinates for biological units, when specified by the authors of a published structure in REMARK 350 of the [[PDB file format]], are available from the [[Protein Data Bank]]. As of February, 2010, &quot;biological assemblies&quot; were available at the bottom of the list under ''Download Files'' (upper right, near the large [[PDB code]]).
+One technical problem with the files from RCSB  is that when they contain more than one copy of the asymmetric unit, the chains all have identical names. Also, the additional copies are in separate models, which in some cases complicates visualization.
 Sometimes, the specific oligomers were not known at the time the asymmetric unit was published. Also, some authors failed to specify the biological unit even when it was known. Rarely, the specified biological units might be incorrect. For all these reasons, it is advisable to consult sources other than REMARK 350.