1e06: Difference between revisions

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-{{Seed}}
-[[Image:1e06.png|left|200px]]
-<!--
+==Porcine Odorant Binding Protein Complexed with 5-methyl-2-(1-methylethyl)phenol==
-The line below this paragraph, containing "STRUCTURE_1e06", creates the "Structure Box" on the page.
+<StructureSection load='1e06' size='340' side='right'caption='[[1e06]], [[Resolution|resolution]] 2.12&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'>[[1e06]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1E06 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1E06 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]] 2.12&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPB:5-METHYL-2-(1-METHYLETHYL)PHENOL'>IPB</scene></td></tr>
-{{STRUCTURE_1e06|  PDB=1e06  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1e06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1e06 OCA], [https://pdbe.org/1e06 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1e06 RCSB], [https://www.ebi.ac.uk/pdbsum/1e06 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1e06 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/OBP_PIG OBP_PIG] This protein is found in nasal epithelium and it binds a wide variety of chemical odorants.
+== 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/e0/1e06_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1e06 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Porcine odorant binding protein (pOBP) is a monomer of 157 amino acid residues, purified in abundance from pig nasal mucosa. In contrast to the observation on lipocalins as retinol binding protein (RBP), major urinary protein (MUP) or bovine odorant binding protein (bOBP), no naturally occurring ligand was found in the beta-barrel cavity of pOBP. Porcine OBP was therefore chosen as a simple model for structure/function studies with odorant molecules. In competition experiments with tritiated pyrazine, the affinity of pOBP towards several odorant molecules belonging to different chemical classes has been found to be of the micromolar order, with a 1:1 stoichiometry. The X-ray structures of pOBP complexed to these molecules were determined at resolution between 2.15 and 1.4 A. As expected, the electron density of the odorant molecules was observed into the hydrophobic beta-barrel of the lipocalin. Inside this cavity, very few specific interactions were established between the odorant molecule and the amino acid side-chains, which did not undergo significant conformational change. The high B-factors observed for the odorant molecules as well as the existence of alternative conformations reveal a non-specific mode of binding of the odorant molecules in the cavity.
-===PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH 5-METHYL-2-(1-METHYLETHYL)PHENOL===
+Complexes of porcine odorant binding protein with odorant molecules belonging to different chemical classes.,Vincent F, Spinelli S, Ramoni R, Grolli S, Pelosi P, Cambillau C, Tegoni M J Mol Biol. 2000 Jun 30;300(1):127-39. PMID:10864504<ref>PMID:10864504</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1e06" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_10864504}}, adds the Publication Abstract to the page
+*[[Odorant binding protein 3D structures|Odorant binding protein 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 10864504 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_10864504}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-E06 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1E06 OCA].
-==Reference==
-<ref group="xtra">PMID:10864504</ref><references group="xtra"/>
 [[Category: Sus scrofa]]
-[[Category: Cambillau, C.]]
+[[Category: Cambillau C]]
-[[Category: Spinelli, S.]]
+[[Category: Spinelli S]]
-[[Category: Tegoni, M.]]
+[[Category: Tegoni M]]
-[[Category: Vincent, F.]]
+[[Category: Vincent F]]
-[[Category: Lipocalin]]
-[[Category: Odorant binding protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 13:06:47 2009''