Jmol Help: Difference between revisions
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== Biological macromolecules == | |||
=== Primary structure === | |||
==== Amino acid residues ==== | |||
<table style="text-align: center;"> | |||
<tr> | |||
<td title="alanine" style="width: 2em; background-color: #8CFF8C;"> Ala | |||
</td> | |||
<td title="arginine" style="width: 2em; background-color: #00007C;"> Arg | |||
</td> | |||
<td title="asparagine" style="width: 2em; background-color: #00A1FF;"> Asn | |||
</td> | |||
<td title="aspartic acid" style="width: 2em; background-color: #A00042"> Asp | |||
</td> | |||
<td title="cystine" style="width: 2em; background-color: #A00042;"> Cys | |||
</td> | |||
<td title="glutamine" style="width: 2em; background-color: #006BFF;"> Gln | |||
</td> | |||
<td title="glutamic acid" style="width: 2em; background-color: #FF4C4C;"> Glu | |||
</td> | |||
<td title="glycine" style="width: 2em; background-color: #FFFFFF; border:1px solid lightgray;"> Gly | |||
</td> | |||
<td title="histidine" style="width: 2em; background-color: #7070FF;"> His | |||
</td> | |||
<td title="isoleucine" style="width: 2em; background-color: #004C00;"> Ile | |||
</td> | |||
<td title="leucine" style="width: 2em; background-color: #455E45;"> Leu | |||
</td> | |||
<td title="lysine" style="width: 2em; background-color: #4747B8;"> Lys | |||
</td> | |||
<td title="methionine" style="width: 2em;background-color: #B8A042;"> Met | |||
</td> | |||
<td title="phenylalanine" style="width: 2em; background-color: #534C52;"> Phe | |||
</td> | |||
<td title="proline" style="width: 2em; background-color: #525252;"> Pro | |||
</td> | |||
<td title="serine" style="width: 2em; background-color: #FF7042;"> Ser | |||
</td> | |||
<td title="threonine" style="width: 2em; background-color: #B84C00;"> Thr | |||
</td> | |||
<td title="tryptophan" style="width: 2em; background-color: #4F4600;"> Trp | |||
</td> | |||
<td title="tyrosine" style="width: 2em; background-color: #8C704C;"> Tyr | |||
</td> | |||
<td title="valine" style="width: 2em; background-color: #FF8CFF;"> Val | |||
</td> | |||
<td title="aspartate or asparagine" style="width: 2em; background-color: #FF00FF;"> Asx | |||
</td> | |||
<td title="glutamic acid or glutamine" style="width: 2em; background-color: #FF00FF;"> Glx | |||
</td> | |||
<td title="other" style="width: 2em; background-color: #FF00FF;"> Xxx | |||
</td></tr></table> | |||
<h5> <span class="mw-headline" id="Nucleotide_base_residues"> Nucleotide base residues </span></h5> | |||
<table> | |||
<tr> | |||
<td title="adenine" style="width:2em; background-color: #A0A0FF; text-align: center;"> A | |||
</td> | |||
<td title="guanine" style="width:2em; background-color: #FF7070; text-align: center;"> G | |||
</td> | |||
<td title="inosine" style="width:2em; background-color: #80FFFF; text-align: center;"> I | |||
</td> | |||
<td title="cytosine" style="width:2em; background-color: #FF8C4B; text-align: center;"> C | |||
</td> | |||
<td title="thymine" style="width:2em; background-color: #A0FFA0; text-align: center;"> T | |||
</td> | |||
<td title="uracil" style="width:2em; background-color: #FF8080; text-align: center;"> U | |||
</td></tr></table> | |||
=== Secondary structure === | |||
==== Polypeptides ==== | |||
<table> | |||
<tr> | |||
<td style="width:5em; background-color: #FF0080; text-align: center;">α helix | |||
</td> | |||
<td style="width:5em; background-color: #A00080; text-align: center;">3<sub>10</sub> helix | |||
</td> | |||
<td style="width:5em; background-color: #600080; text-align: center;">π helix | |||
</td> | |||
<td style="width:5em; background-color: #FFC800; text-align: center;">β strand | |||
</td> | |||
<td style="width:5em; background-color: #6080FF; text-align: center;">(β) turn | |||
</td> | |||
<td style="width:5em; background-color: #FFFFFF; text-align: center; border:1px solid lightgray;"> other | |||
</td> | |||
<td style="width:5em; background-color: #FFFFFF; text-align: center;"> | |||
</td> | |||
<td style="width:5em; background-color: #AE00FE; text-align: center;">DNA | |||
</td> | |||
<td style="width:5em; background-color: #FD0162; text-align: center;">RNA | |||
</td> | |||
<td style="width:5em; background-color: #FFFFFF; text-align: center; border:1px solid lightgray;">other | |||
</td> | |||
<td style="width:5em; background-color: #FFFFFF; text-align: center;"> | |||
</td> | |||
<td style="width:5em; background-color: #A6A6FA; text-align: center;">carbo<wbr>hydrate | |||
</td> | |||
<td style="width:5em; background-color: #808080; text-align: center;">other | |||
</td></tr></table> | |||
==== Nucleic acids ==== | |||
=== Tertiary structure === | |||
==== Polypeptides and nucleic acids ==== | |||
<table style="border-spacing:0;border-collapse:collapse"> | |||
<tr> | |||
<td colspan="16" style="text-align:left">N-terminal or 5’- | |||
</td> | |||
<td> | |||
</td> | |||
<td colspan="16" style="text-align:right">C-terminal or 3’- | |||
</td></tr> | |||
<tr style="height:1em"> | |||
<td style="width:1em; background-color:#0000ff"> | |||
</td> | |||
<td style="width:1em; background-color:#0020ff"> | |||
</td> | |||
<td style="width:1em; background-color:#0040ff"> | |||
</td> | |||
<td style="width:1em; background-color:#0060ff"> | |||
</td> | |||
<td style="width:1em; background-color:#0080ff"> | |||
</td> | |||
<td style="width:1em; background-color:#00a0ff"> | |||
</td> | |||
<td style="width:1em; background-color:#00c0ff"> | |||
</td> | |||
<td style="width:1em; background-color:#00e0ff"> | |||
</td> | |||
<td style="width:1em; background-color:#00ffff"> | |||
</td> | |||
<td style="width:1em; background-color:#00ffe0"> | |||
</td> | |||
<td style="width:1em; background-color:#00ffc0"> | |||
</td> | |||
<td style="width:1em; background-color:#00ffa0"> | |||
</td> | |||
<td style="width:1em; background-color:#00ff80"> | |||
</td> | |||
<td style="width:1em; background-color:#00ff60"> | |||
</td> | |||
<td style="width:1em; background-color:#00ff40"> | |||
</td> | |||
<td style="width:1em; background-color:#00ff20"> | |||
</td> | |||
<td style="width:1em; background-color:#00ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#20ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#40ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#60ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#80ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#a0ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#c0ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#e0ff00"> | |||
</td> | |||
<td style="width:1em; background-color:#ffff00"> | |||
</td> | |||
<td style="width:1em; background-color:#ffe000"> | |||
</td> | |||
<td style="width:1em; background-color:#ffc000"> | |||
</td> | |||
<td style="width:1em; background-color:#ffa000"> | |||
</td> | |||
<td style="width:1em; background-color:#ff8000"> | |||
</td> | |||
<td style="width:1em; background-color:#ff6000"> | |||
</td> | |||
<td style="width:1em; background-color:#ff4000"> | |||
</td> | |||
<td style="width:1em; background-color:#ff2000"> | |||
</td> | |||
<td style="width:1em; background-color:#ff0000"> | |||
</td></tr></table> | |||
== Jmol measurements == | == Jmol measurements == |
Revision as of 19:02, 30 March 2014
Help with using the Jmol_filter
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Li | Be | B | C | N | O | F | Ne | ||||||||||
Na | Mg | Al | Si | P | S | Cl | Ar | ||||||||||
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Cs | Ba | * | Hf | Ta | W | Re | Os | Ir | Pt | Au | Hg | Tl | Pb | Bi | Po | At | Rn |
Fr | Ra | ** | Rf | Db | Sg | Bh | Hs | Mt | |||||||||
* | La | Ce | Pr | Nd | Pm | Sm | Eu | Gd | Tb | Dy | Ho | Er | Tm | Yb | Lu | ||
** | Ac | Th | Pa | U | Np | Pu | Am | Cm | Bk | Cf | Es | Fm | Md | No | Lr |
Biological macromolecules
Primary structure
Amino acid residues
Ala | Arg | Asn | Asp | Cys | Gln | Glu | Gly | His | Ile | Leu | Lys | Met | Phe | Pro | Ser | Thr | Trp | Tyr | Val | Asx | Glx | Xxx |
Nucleotide base residues
A | G | I | C | T | U |
Secondary structure
Polypeptides
α helix | 310 helix | π helix | β strand | (β) turn | other | DNA | RNA | other | carbo |
other |
Nucleic acids
Tertiary structure
Polypeptides and nucleic acids
N-terminal or 5’- | C-terminal or 3’- | |||||||||||||||||||||||||||||||
Jmol measurements
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