3c1q: Difference between revisions

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-{{Seed}}
-[[Image:3c1q.png|left|200px]]
-<!--
+==The three-dimensional structure of the cytoplasmic domains of EpsF from the Type 2 Secretion System of Vibrio cholerae==
-The line below this paragraph, containing "STRUCTURE_3c1q", creates the "Structure Box" on the page.
+<StructureSection load='3c1q' size='340' side='right'caption='[[3c1q]], [[Resolution|resolution]] 1.70&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'>[[3c1q]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C1Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C1Q 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]] 1.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PE5:3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL'>PE5</scene></td></tr>
-{{STRUCTURE_3c1q|  PDB=3c1q  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3c1q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c1q OCA], [https://pdbe.org/3c1q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c1q RCSB], [https://www.ebi.ac.uk/pdbsum/3c1q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c1q ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/GSPF_VIBCH GSPF_VIBCH] Involved in a type II secretion system (T2SS, formerly general secretion pathway, GSP) for the export of proteins (By similarity). Required for secretion of cholera toxin through the outer membrane.
+== 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/c1/3c1q_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=3c1q ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The type 2 secretion system (T2SS), a multi-protein machinery that spans both the inner and the outer membranes of Gram-negative bacteria, is used for the secretion of several critically important proteins across the outer membrane. Here we report the crystal structure of the N-terminal cytoplasmic domain of EpsF, an inner membrane spanning T2SS protein from Vibrio cholerae. This domain consists of a bundle of six anti-parallel helices and adopts a fold that has not been described before. The long C-terminal helix alpha6 protrudes from the body of the domain and most likely continues as the first transmembrane helix of EpsF. Two N-terminal EpsF domains form a tight dimer with a conserved interface, suggesting that the observed dimer occurs in the T2SS of many bacteria. Two calcium binding sites are present in the dimer interface with ligands provided for each site by both subunits. Based on this new structure, sequence comparisons of EpsF homologs and localization studies of GFP fused with EpsF, we propose that the second cytoplasmic domain of EpsF adopts a similar fold as the first cytoplasmic domain and that full-length EpsF, and its T2SS homologs, have a three-transmembrane helix topology.
-===The three-dimensional structure of the cytoplasmic domains of EpsF from the Type 2 Secretion System of Vibrio cholerae===
+The three-dimensional structure of the cytoplasmic domains of EpsF from the type 2 secretion system of Vibrio cholerae.,Abendroth J, Mitchell DD, Korotkov KV, Johnson TL, Kreger A, Sandkvist M, Hol WG J Struct Biol. 2009 Jun;166(3):303-15. Epub 2009 Mar 24. PMID:19324092<ref>PMID:19324092</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3c1q" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_19324092}}, adds the Publication Abstract to the page
+*[[General secretion pathway protein 3D structures|General secretion pathway protein 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 19324092 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19324092}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-C1Q is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C1Q OCA].
-==Reference==
-<ref group="xtra">PMID:19324092</ref><references group="xtra"/>
 [[Category: Vibrio cholerae]]
-[[Category: Abendroth, J.]]
+[[Category: Abendroth J]]
-[[Category: Hol, W G.J.]]
+[[Category: Hol WGJ]]
-[[Category: Korotkov, K V.]]
+[[Category: Korotkov KV]]
-[[Category: Kreeger, A.]]
+[[Category: Kreeger A]]
-[[Category: Mitchell, D D.]]
+[[Category: Mitchell DD]]
-[[Category: Cholera]]
-[[Category: Inner membrane]]
-[[Category: Membrane]]
-[[Category: T2ss]]
-[[Category: T4pb]]
-[[Category: Transmembrane]]
-[[Category: Transport protein]]
-[[Category: Type 2 secretion system]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 20 16:12:06 2009''