3bk6: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 ==Crystal structure of a core domain of stomatin from Pyrococcus horikoshii==
-<StructureSection load='3bk6' size='340' side='right' caption='[[3bk6]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
+<StructureSection load='3bk6' size='340' side='right'caption='[[3bk6]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3bk6]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/'pyrococcus_shinkaii' 'pyrococcus shinkaii']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BK6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BK6 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3bk6]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BK6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BK6 FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PH1511 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53953 'Pyrococcus shinkaii'])</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.2&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3bk6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bk6 OCA], [http://pdbe.org/3bk6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bk6 RCSB], [http://www.ebi.ac.uk/pdbsum/3bk6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bk6 ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3bk6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bk6 OCA], [https://pdbe.org/3bk6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bk6 RCSB], [https://www.ebi.ac.uk/pdbsum/3bk6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bk6 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/PSTOM_PYRHO PSTOM_PYRHO]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 17: / Line 19: @@
 </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=3bk6 ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Stomatin is a major integral membrane protein of human erythrocytes, the absence of which is associated with a form of hemolytic anemia known as hereditary stomatocytosis. However, the function of stomatin is not fully understood. An open reading frame, PH1511, from the hyperthermophilic archaeon Pyrococcus horikoshii encodes p-stomatin, a prokaryotic stomatin. Here, we report the first crystal structure of a stomatin ortholog, the core domain of the p-stomatin PH1511p (residues 56-234 of PH1511p, designated as PhSto(CD)). PhSto(CD) forms a novel homotrimeric structure. Three alpha/beta domains form a triangle of about 50 A on each side, and three alpha-helical segments of about 60 A in length extend from the apexes of the triangle. The alpha/beta domain of PhSto(CD) is partly similar in structure to the band-7 domain of mouse flotillin-2. While the alpha/beta domain is relatively rigid, the alpha-helical segment shows conformational flexibility, adapting to the neighboring environment. One alpha-helical segment forms an anti-parallel coiled coil with another alpha-helical segment from a symmetry-related molecule. The alpha-helical segment shows a heptad repeat pattern, and mainly hydrophobic residues form a coiled-coil interface. According to chemical cross-linking experiments, PhSto(CD) would be able to assemble into an oligomeric form. The coiled-coil fold observed in the crystal probably contributes to self-association.
-Crystal structure of a core domain of stomatin from Pyrococcus horikoshii Illustrates a novel trimeric and coiled-coil fold.,Yokoyama H, Fujii S, Matsui I J Mol Biol. 2008 Feb 22;376(3):868-78. Epub 2008 Jan 8. PMID:18182167<ref>PMID:18182167</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 3bk6" style="background-color:#fffaf0;"></div>
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: Pyrococcus shinkaii]]
+[[Category: Large Structures]]
-[[Category: Fujii, S]]
-[[Category: Matsui, I]]
-[[Category: Yokoyama, H]]
-[[Category: Archaea]]
-[[Category: Coiled-coil]]
-[[Category: Flotillin]]
-[[Category: Membrane fusion]]
-[[Category: Membrane protein]]
 [[Category: Pyrococcus horikoshii]]
-[[Category: Spfh]]
+[[Category: Fujii S]]
-[[Category: Stomatin]]
+[[Category: Matsui I]]
-[[Category: Trafficking]]
+[[Category: Yokoyama H]]
-[[Category: Transmembrane]]
-[[Category: Trimer]]