Jmol/Visualizing large molecules: Difference between revisions
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Jmol can automatically apply a distinct color to each chain, up to 36 chains ([http://jmol.sourceforge.net/jscolors/#Chains Jmol Colors]). However, it can distinguish 62 chains by selection (see [http://chemapps.stolaf.edu/jmol/docs/#setmisc set chainCaseSensitive]). | Jmol can automatically apply a distinct color to each chain, up to 36 chains ([http://jmol.sourceforge.net/jscolors/#Chains Jmol Colors]). However, it can distinguish 62 chains by selection (see [http://chemapps.stolaf.edu/jmol/docs/#setmisc set chainCaseSensitive]). | ||
===Chains Longer Than ??? Amino Acids=== | |||
The frequency-in-protein weighted average molecular weight of an amino acid is 110<ref>Average molecular weight of an amino acid is about 138. When the average is weighted according to the occurrences of amino acids in proteins, it is about 128. Subtracting 18 for the weight of water removed when a peptide bond is formed, the average is 110. This is explained in [http://books.google.com/books?id=5Ek9J4p3NfkC&pg=PA84&lpg=PA84&dq=average+amino+acid+molecular+weight&source=bl&ots=ZxHCOzsnjL&sig=we53bW4b7kLuy53LL2BHNDd8CwU&hl=en&sa=X&ei=SD81UdatGo6B0AHy8oHwDQ&ved=0CFEQ6AEwBA#v=onepage&q=average%20amino%20acid%20molecular%20weight&f=false Lehninger Principles of Biochemistry].</ref> | |||
==Multiple Model Files== | ==Multiple Model Files== | ||
