Calculate structure: Difference between revisions
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Use end note to open necessary sites.<ref>[http://www.pdb.org/pdb/explore/remediatedSequence.do?structureId=2MHR Open myohemerytherin at sequence page]; [http://www.pdb.org/pdb/explore/sequenceText.do?structureId=2MHR&chainId=A Open sequence and Secondary structure page]</ref> Follow directions given above. If you select one of the other methods of secondary structure annotations, you will observe that class VIb β-turns are among the structures being annotated. | Use end note to open necessary sites.<ref>[http://www.pdb.org/pdb/explore/remediatedSequence.do?structureId=2MHR Open myohemerytherin at sequence page]; [http://www.pdb.org/pdb/explore/sequenceText.do?structureId=2MHR&chainId=A Open sequence and Secondary structure page]</ref> Follow directions given above. If you select one of the other methods of secondary structure annotations, you will observe that class VIb β-turns are among the structures being annotated. | ||
=== Domain 2 of chain A Glycogen Phosphorylase === | |||
<scene name='Calculate_structure/Domain_2/2'>Load Structure</scene> <br> | |||
If the applet is not running the signed ver. 12 of Jmol, connect with it as you did above, and then click on the above green link.<br> | |||
After clicking on the above green link, open the console and run the script: <center>select protein; calculate structure; cartoon; color structure; calculate hbonds structure</center><br> | After clicking on the above green link, open the console and run the script: <center>select protein; calculate structure; cartoon; color structure; calculate hbonds structure</center><br> | ||
* <scene name='Calculate_structure/Domain_2_3turns2/6'>High light</scene> each of the one residue T segments (''e.g.'' T : A:488_A:488) in the summary below along with a few residues on each side of the single residue. Improve the view by displaying these <scene name='Calculate_structure/Domain_2_3turns3/8'>segments in isolation</scene>. (Remember to display the hbonds by running ''calculate hbonds structure'' from the console.) Only one segment has a residue colored blue, and the other residues are colored as being part of a helix or sheet. See summary below for a description of each of these T: segments. The only turns that these single residue segments are part of are involved helices. | * <scene name='Calculate_structure/Domain_2_3turns2/6'>High light</scene> each of the one residue T segments (''e.g.'' T : A:488_A:488) in the summary below along with a few residues on each side of the single residue. Improve the view by displaying these <scene name='Calculate_structure/Domain_2_3turns3/8'>segments in isolation</scene>. (Remember to display the hbonds by running ''calculate hbonds structure'' from the console.) Only one segment has a residue colored blue, and the other residues are colored as being part of a helix or sheet. See summary below for a description of each of these T: segments. The only turns that these single residue segments are part of are involved helices. | ||
