Frequently Asked Questions
for Protein Explorer (PE)

The comprensive answer source is PE's Help/Index/Glossary.

  1. How do I get Protein Explorer to work? It won't even show me a molecule! Answer: See Troubleshooting.
  2. Can I get Protein Explorer to work with linux? Answer: Yes! See PE with linux.

  3. How do I cite Protein Explorer? Answer: See Literature About Protein Explorer.
  4. What are people saying about Protein Explorer? Answer: See Literature About Protein Explorer.

  5. Where can I get a PDB file for a lipid bilayer? (or NaCl? or cholesterol? or valium? or other molecules not available at the Protein Data Bank?) Answer: Look under the Molecules section at molvisindex.org.

  6. How do I use Protein Explorer in my teaching? Answer: See Lesson Plans and Assessment.
  7. Protein Explorer is too complicated for my class. Where can I find a basic tutorial in Chime on DNA? (or tRNA? or the ribosome? or an animation of translation? or amino acids? etc. etc.) Answer: Tutorials on over 100 molecules are indexed at molvisindex.org.

  8. How do I print a publication-quality image? Answer: See Printing publication-quality images.
  9. How do I save
    1. A static molecular image from Protein Explorer for use in Powerpoint, etc.? Answer: See Saving Images.
    2. A rotating molecular image from Protein Explorer for use in Powerpoint, etc.? Answer: See Powerpoint.
    3. The state of Protein Explorer, to resume the session later? Answer: See the PE Recorder.

  10. How do I mutate the protein? Answer: See mutation.
  11. I have the sequence for my protein, but I can't find a PDB file for it. What do I do? Answer: Make sure you've tried both SearchFields and OCA. If there is really no published 3D structure, try homology modeling.
  12. How do I make one of those cool presentations using Chime, like the one I've seen on hemoglobin (or DNA, or green fluorescent protein, etc.)? Answer: See Presentations.

  13. My question isn't here. What do I do? Answer: Please consult PE's Help/Index/Glossary. If you think your question should be in the FAQ, please tell yours truly.

Feedback to Eric Martz.