Practical Guide to Homology Modeling: Difference between revisions
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====Hydrophobic/Polar==== | ====Hydrophobic/Polar==== | ||
Most of the views under the ''Views'' tab will be informative. Particularly important is the ''Hydrophobic/Polar'' view. Soluble proteins should not have large areas (> ~ 15 Å across) of hydrophobic surface. Polar residues should be sprinkled over the entire surface. An exception is lipases, e.g. [[1lpm]], where the pocket at the catalytic site is hydrophobic. | Most of the views under the ''Views'' tab will be informative. Particularly important is the ''Hydrophobic/Polar'' view. Soluble proteins should not have large areas (> ~ 15 Å across) of hydrophobic surface. Polar residues should be sprinkled over the entire surface. An exception is lipases, e.g. [[1lpm]], where the pocket at the catalytic site is hydrophobic. Other exceptions would, of course, be insoluble proteins, such as integral or trans-membrane proteins, e.g. [[1bl8]], [[7ahl]]. | ||
<center> | |||
<table><tr><td> | |||
</td><td> | |||
Hydrophilic surface of a protein (1lpm). | |||
</td></tr><tr><td> | |||
</td><td> | |||
Hydrophobic catalytic face of lipase (1lpm). | |||
</td></tr></table> | |||
{{Template:ColorKey_Hydrophobic}}, {{Template:ColorKey_Polar}} | |||
</center> | |||
==See Also== | ==See Also== | ||
