3kn1: Difference between revisions

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-{{Seed}}
-[[Image:3kn1.png|left|200px]]
-<!--
+==Crystal Structure of Golgi Phosphoprotein 3 N-term Truncation Variant==
-The line below this paragraph, containing "STRUCTURE_3kn1", creates the "Structure Box" on the page.
+<StructureSection load='3kn1' size='340' side='right'caption='[[3kn1]], [[Resolution|resolution]] 2.90&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'>[[3kn1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KN1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KN1 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]] 2.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_3kn1|  PDB=3kn1  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3kn1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kn1 OCA], [https://pdbe.org/3kn1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kn1 RCSB], [https://www.ebi.ac.uk/pdbsum/3kn1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kn1 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/GOLP3_HUMAN GOLP3_HUMAN] Mediates the cis and medial Golgi localization of mannosyltransferases through direct binding of their cytosolic domains. Involved in modulation of mTOR signaling. Involved in the regulation of mitochondrial lipids, leading to increase of mitochondrial mass. Potential oncogene.<ref>PMID:16263763</ref> <ref>PMID:19553991</ref> <ref>PMID:20026658</ref>
+== 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/kn/3kn1_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=3kn1 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Targeting and retention of resident integral membrane proteins of the Golgi apparatus underly the function of the Golgi in glycoprotein and glycolipid processing and sorting. In yeast, steady-state Golgi localization of multiple mannosyltransferases requires recognition of their cytosolic domains by the peripheral Golgi membrane protein Vps74, an orthologue of human GOLPH3/GPP34/GMx33/MIDAS (mitochondrial DNA absence sensitive factor). We show that targeting of Vps74 and GOLPH3 to the Golgi apparatus requires ongoing synthesis of phosphatidylinositol (PtdIns) 4-phosphate (PtdIns4P) by the Pik1 PtdIns 4-kinase and that modulation of the levels and cellular location of PtdIns4P leads to mislocalization of these proteins. Vps74 and GOLPH3 bind specifically to PtdIns4P, and a sulfate ion in a crystal structure of GOLPH3 indicates a possible phosphoinositide-binding site that is conserved in Vps74. Alterations in this site abolish phosphoinositide binding in vitro and Vps74 function in vivo. These results implicate Pik1 signaling in retention of Golgi-resident proteins via Vps74 and show that GOLPH3 family proteins are effectors of Golgi PtdIns 4-kinases.
-===Crystal Structure of Golgi Phosphoprotein 3 N-term Truncation Variant===
+PtdIns4P recognition by Vps74/GOLPH3 links PtdIns 4-kinase signaling to retrograde Golgi trafficking.,Wood CS, Schmitz KR, Bessman NJ, Setty TG, Ferguson KM, Burd CG J Cell Biol. 2009 Dec 28;187(7):967-75. Epub 2009 Dec 21. PMID:20026658<ref>PMID:20026658</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_20026658}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 3kn1" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 20026658 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_20026658}}
+__TOC__
+</StructureSection>
-==About this Structure==
-KN1 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KN1 OCA].
-==Reference==
-<ref group="xtra">PMID:20026658</ref><references group="xtra"/>
 [[Category: Homo sapiens]]
-[[Category: Bessman, N J.]]
+[[Category: Large Structures]]
-[[Category: Ferguson, K M.]]
+[[Category: Bessman NJ]]
-[[Category: Schmitz, K R.]]
+[[Category: Ferguson KM]]
-[[Category: Setty, T G.]]
+[[Category: Schmitz KR]]
-[[Category: Beta hairpin]]
+[[Category: Setty TG]]
-[[Category: Cell membrane]]
-[[Category: Cytoplasm]]
-[[Category: Endosome]]
-[[Category: Golgi apparatus]]
-[[Category: Membrane]]
-[[Category: Mitochondrion]]
-[[Category: Phosphoinositide binding domain]]
-[[Category: Phosphoprotein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 13 12:58:11 2010''