3dsi: Difference between revisions

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-{{Seed}}
-[[Image:3dsi.png|left|200px]]
-<!--
+==Crystal Structure of Arabidopsis thaliana Allene Oxide Synthase (AOS, cytochrome P450 74A, CYP74A) Complexed with 13(S)-HOT at 1.60 A resolution==
-The line below this paragraph, containing "STRUCTURE_3dsi", creates the "Structure Box" on the page.
+<StructureSection load='3dsi' size='340' side='right'caption='[[3dsi]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3dsi]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DSI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DSI FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=T24:(9Z,11E,13S,15Z)-13-HYDROXYOCTADECA-9,11,15-TRIENOIC+ACID'>T24</scene></td></tr>
-{{STRUCTURE_3dsi|  PDB=3dsi  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dsi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dsi OCA], [https://pdbe.org/3dsi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dsi RCSB], [https://www.ebi.ac.uk/pdbsum/3dsi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dsi ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/CP74A_ARATH CP74A_ARATH]
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ds/3dsi_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3dsi ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The oxylipin pathway generates not only prostaglandin-like jasmonates but also green leaf volatiles (GLVs), which confer characteristic aromas to fruits and vegetables. Although allene oxide synthase (AOS) and hydroperoxide lyase are atypical cytochrome P450 family members involved in the synthesis of jasmonates and GLVs, respectively, it is unknown how these enzymes rearrange their hydroperoxide substrates into different products. Here we present the crystal structures of Arabidopsis thaliana AOS, free and in complex with substrate or intermediate analogues. The structures reveal an unusual active site poised to control the reactivity of an epoxyallylic radical and its cation by means of interactions with an aromatic pi-system. Replacing the amino acid involved in these steps by a non-polar residue markedly reduces AOS activity and, unexpectedly, is both necessary and sufficient for converting AOS into a GLV biosynthetic enzyme. Furthermore, by combining our structural data with bioinformatic and biochemical analyses, we have discovered previously unknown hydroperoxide lyase in plant growth-promoting rhizobacteria, AOS in coral, and epoxyalcohol synthase in amphioxus. These results indicate that oxylipin biosynthetic genes were present in the last common ancestor of plants and animals, but were subsequently lost in all metazoan lineages except Placozoa, Cnidaria and Cephalochordata.
-===Crystal Structure of Arabidopsis thaliana Allene Oxide Synthase (AOS, cytochrome P450 74A, CYP74A) Complexed with 13(S)-HOT at 1.60 A resolution===
+Structural insights into the evolutionary paths of oxylipin biosynthetic enzymes.,Lee DS, Nioche P, Hamberg M, Raman CS Nature. 2008 Sep 18;455(7211):363-8. Epub 2008 Aug 20. PMID:18716621<ref>PMID:18716621</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3dsi" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_18716621}}, adds the Publication Abstract to the page
+*[[Cytochrome P450 3D structures|Cytochrome P450 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 18716621 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_18716621}}
+__TOC__
+</StructureSection>
-==About this Structure==
-DSI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DSI OCA].
-==Reference==
-Structural insights into the evolutionary paths of oxylipin biosynthetic enzymes., Lee DS, Nioche P, Hamberg M, Raman CS, Nature. 2008 Sep 18;455(7211):363-8. Epub 2008 Aug 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18716621 18716621]
 [[Category: Arabidopsis thaliana]]
-[[Category: Hydroperoxide dehydratase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Lee DS]]
-[[Category: Lee, D S.]]
+[[Category: Nioche P]]
-[[Category: Nioche, P.]]
+[[Category: Raman CS]]
-[[Category: Raman, C S.]]
-[[Category: Chloroplast]]
-[[Category: Fatty acid biosynthesis]]
-[[Category: Heme]]
-[[Category: Iron]]
-[[Category: Lipid synthesis]]
-[[Category: Lyase]]
-[[Category: Metal-binding]]
-[[Category: Oxylipin biosynthesis]]
-[[Category: P450]]
-[[Category: Plastid]]
-[[Category: Transit peptide]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 24 08:58:36 2008''