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Jmol/Visualizing membrane position
From Proteopedia
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==Methods: Pseudoatoms== | ==Methods: Pseudoatoms== | ||
| - | Any protein structure that includes an integral membrane domain can have pseudoatoms added to the [[PDB file]] by the [http://opm.phar.umich.edu/ Orientations of Proteins in Membranes Server]<ref name="opm">PMID: 21890895</ref>. | + | Any protein structure that includes an integral membrane domain can have pseudoatoms added to the [[PDB file]] by the [http://opm.phar.umich.edu/ Orientations of Proteins in Membranes Server]<ref name="opm">PMID: 21890895</ref>. Structures in the [[Protein Data Bank]] are pre-processed; other structures may be uploaded to the server. The server removes hydrogen atoms from the model. |
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| + | You can download the pseudoatom-enhanced PDB file from the server, and then [[Help:Uploading_molecules|upload it to Proteopedia]] for use in a ''Molecular Scene''. | ||
</StructureSection> | </StructureSection> | ||
== References == | == References == | ||
<references/> | <references/> | ||
Revision as of 19:08, 30 March 2018
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References
- ↑ 1.0 1.1 Lomize MA, Pogozheva ID, Joo H, Mosberg HI, Lomize AL. OPM database and PPM web server: resources for positioning of proteins in membranes. Nucleic Acids Res. 2012 Jan;40(Database issue):D370-6. doi: 10.1093/nar/gkr703., Epub 2011 Sep 2. PMID:21890895 doi:http://dx.doi.org/10.1093/nar/gkr703
