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JMS/Sandbox/SMART HLA

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(New page: ==Your Heading Here (maybe something like 'Structure')== <StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''> This is a default text for you...)
Current revision (14:06, 23 June 2015) (edit) (undo)
 
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==Your Heading Here (maybe something like 'Structure')==
==Your Heading Here (maybe something like 'Structure')==
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<StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''>
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<StructureSection load='1mbn' size='340' side='right' caption='Caption for this structure' scene=''>
This is a default text for your page '''JMS/Sandbox/SMART HLA'''. Click above on '''edit this page''' to modify. Be careful with the &lt; and &gt; signs.
This is a default text for your page '''JMS/Sandbox/SMART HLA'''. Click above on '''edit this page''' to modify. Be careful with the &lt; and &gt; signs.
You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.
You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.
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== Structural highlights ==
== Structural highlights ==
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<scene name='70/705122/Myoglobin_pairs/1'>aligned sperm whale w, pig p, grey seal s, and cat c.
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This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.
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w and p are a group, and s and c, are a group.</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/2'>general disk like structure of myoglobin, with heme ligand.</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/3'>hydrophobic residues (gly, ala,val,leu,ile,pro,phe,met,trp), that are on surface</scene>
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<br/><br/><scene name='70/705122/Hydrophobic_core/1'>hydrophic residues only in the core</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/4'>hydrophic residues only in the core</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/5'>general statement that w and p differ in several amino acids</scene>
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<br/><br/><scene name='70/705122/Sickle_hemoglobin_chain_close/1'>hemoglobin as classic case of hydrophobic patch based aggregation</scene>
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<br/><br/><scene name='70/705122/Sickle_hemoglobin_chain_close/2'>zoomed out. hemoglobin as classic case of hydrophobic patch based aggregation</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/6'>divergent charged aa leading to delta 4</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/7'>stick/wireframe. divergent charged aa leading to delta 4</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/8'>mutations not in site of heme, so not o-binding. rather, net charge change leading to solubility increase.</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/9'>no negative to hydrophobic mutations for pig to whale, which would have increased net charge at the expense of creating hydrophobic patches.</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/10'>with halos. no negative to hydrophobic mutations for pig to whale, which would have increased net charge at the expense of creating hydrophobic patches.</scene>
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<br/><br/><scene name='70/705122/Sickle_hemoglobin_chain_close/2'>zoomed out. hemoglobin as classic case of hydrophobic patch based aggregation</scene>
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<br/><br/><scene name='70/705122/Myoglobin_pairs/11'>mutations overwhelming occur on the surface.</scene>
</StructureSection>
</StructureSection>
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all switches: 1,4,12,15,27,28,35,51,53,66,74,87,101,123,126,128,132,140,142,151
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<br/><br/>
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charge switches: 12,53,87,113,116
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== References ==
== References ==
<references/>
<references/>

Current revision

Your Heading Here (maybe something like 'Structure')

Caption for this structure

Drag the structure with the mouse to rotate

all switches: 1,4,12,15,27,28,35,51,53,66,74,87,101,123,126,128,132,140,142,151

charge switches: 12,53,87,113,116

References

  1. ↑ Hanson, R. M., Prilusky, J., Renjian, Z., Nakane, T. and Sussman, J. L. (2013), JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia. Isr. J. Chem., 53:207-216. doi:http://dx.doi.org/10.1002/ijch.201300024
  2. ↑ Herraez A. Biomolecules in the computer: Jmol to the rescue. Biochem Mol Biol Educ. 2006 Jul;34(4):255-61. doi: 10.1002/bmb.2006.494034042644. PMID:21638687 doi:10.1002/bmb.2006.494034042644

Proteopedia Page Contributors and Editors (what is this?)

Joseph M. Steinberger

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