Electrostatic potential maps
From Proteopedia
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| - | ! scope="colgroup" colspan="3" | Protein [[1pgb]] is in the same orientation in all images. '''{{Font color|blue|Positive +}}''' '''{{Font color|red|Negative -}}''' | + | ! scope="colgroup" colspan="3" | Protein [[1pgb]] is in the same orientation in all images. '''{{Font color|blue|Positive +}}''' / '''{{Font color|red|Negative -}}''' |
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|style="width: 250;" width="250"| [[Image:1pgb-EPM-PyMOL.png|250 px]] | |style="width: 250;" width="250"| [[Image:1pgb-EPM-PyMOL.png|250 px]] | ||
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| Electrostatic potential map rendered by [[PyMOL]]. | | Electrostatic potential map rendered by [[PyMOL]]. | ||
| Electrostatic potential map rendered by [[iCn3D]]. | | Electrostatic potential map rendered by [[iCn3D]]. | ||
| - | | Van der Waals model colored by charge wtih [[FirstGlance in Jmol]]. | + | | Van der Waals model colored by charge wtih [[FirstGlance in Jmol]]. Sidechain '''{{Font color|blue|nitrogens}}''' on Arg/Lys; '''{{Font color|red|oxygens}}''' on Asp/Glu. |
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Revision as of 18:15, 25 August 2024
It is revealing to visualize the distribution of electrostatic charges, electrostatic potential, on molecular surfaces. Most protein-protein and protein-ligand interactions are largely electrostatic in nature, via hydrogen bonds and ionic interactions. Their strengths are modulated by the nature of the solvent: pure water or high ionic strength aqueous solution.
Gallery
| Protein 1pgb is in the same orientation in all images. Positive + / Negative - | ||
|---|---|---|
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| Electrostatic potential map rendered by PyMOL. | Electrostatic potential map rendered by iCn3D. | Van der Waals model colored by charge wtih FirstGlance in Jmol. Sidechain nitrogens on Arg/Lys; oxygens on Asp/Glu. |
 | Electrostatic potential map of 1tsj made with the Embedded Python Molecular Viewer from the Center for Computational Structural Biology of the Scripps Research Institute. |
Click on the image to enlarge. |}
See Also
- Electrostatic interactions in Proteopedia.
- Jmol/Electrostatic potential methods.
- Isopotential Map in Wikipedia
- Delphi Web Server
