Selenocysteine: Difference between revisions

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Eric Martz

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 Sec occurs in all domains of life, including bacteria, archaea, and eukaryota<ref>PMID: 19477234</ref><ref name'wp'>[http://en.wikipedia.org/wiki/Selenocysteine Selenocysteine in Wikipedia]</ref>. Sec occurs in the active sites of enzymes involved in removing reactive oxygen species, and in thyroid hormone activation<ref name='Palioura' />. For more examples, please see [http://en.wikipedia.org/wiki/Selenocysteine Selenocysteine in Wikipedia].
-[http://xray.bmc.uu.se/hicup/ HIC-Up] reports the occurrence of Sec in [http://xray.bmc.uu.se/hicup/CSE/ 11 entries] in the [[PDB]]. The highest [[Resolution|resolution]] entry is [[1kqf]] (1.6 &Aring;), with Sec at 196 in chain A. To see it, go to [[1kqf]] and click on CSE under Non-Standard Residues.
+In January, 2022, '''76 entries''' in the [[wwPDB]] contain Sec. An example of naturally-occuring Sec is human glutathione peroxidase 4, where Sec46 occurs in the catalytic site. [[6hn3]] is the wild type, while [[6hkq]] has an inhibitor covalently bound to the Sec.
+==Visualization==
+[http://firstglance.jmol.org/fg.htm?mol=6hkq View 6HKQ in FirstGlance in Jmol].
+:1. Look for the "Focus Box" (in the upper left panel, scroll down to the bottom ), and there click on "Find..".
+:2. Enter '''sec''' into the Find slot.
+To examine in detail what contacts the Sec46 (continuing from step 2 above):
+:3. Click on "Contacts & Non-Covalent Interactions" in the Tools tab.
+:4. Check "Atoms with Halos" as the target.
+:5. Click "Show atoms contacting target".
+Explore using the tools that are now available in the lower left "Contacts Shown" panel.
 ==Translation from UGA Stop Codon==