2wgm

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{{Seed}}
 
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[[Image:2wgm.png|left|200px]]
 
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==Complete ion-coordination structure in the rotor ring of Na-dependent F-ATP synthase==
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The line below this paragraph, containing "STRUCTURE_2wgm", creates the "Structure Box" on the page.
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<StructureSection load='2wgm' size='340' side='right'caption='[[2wgm]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2wgm]] is a 44 chain structure with sequence from [https://en.wikipedia.org/wiki/Ilyobacter_tartaricus Ilyobacter tartaricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WGM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WGM FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.35&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F09:NONAN-1-OL'>F09</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
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{{STRUCTURE_2wgm| PDB=2wgm | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2wgm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wgm OCA], [https://pdbe.org/2wgm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wgm RCSB], [https://www.ebi.ac.uk/pdbsum/2wgm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wgm ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ATPL_ILYTA ATPL_ILYTA] F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane sodium channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to sodium translocation.[HAMAP-Rule:MF_01396] Key component of the F(0) channel; it plays a direct role in translocation across the membrane. A homomeric c-ring of 11 subunits forms the central stalk rotor element with the F(1) delta and epsilon subunits.[HAMAP-Rule:MF_01396]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wg/2wgm_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2wgm ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The membrane-embedded rotors of Na(+)-dependent F-ATP synthases comprise 11 c-subunits that form a ring, with 11 Na(+) binding sites in between adjacent subunits. Following an updated crystallographic analysis of the c-ring from Ilyobacter tartaricus, we report the complete ion-coordination structure of the Na(+) sites. In addition to the four residues previously identified, there exists a fifth ligand, namely, a buried structural water molecule. This water is itself coordinated by Thr67, which, sequence analysis reveals, is the only residue involved in binding that distinguishes Na(+) synthases from H(+)-ATP synthases known to date. Molecular dynamics simulations and free-energy calculations of the c-ring in a lipid membrane lend clear support to the notion that this fifth ligand is a water molecule, and illustrate its influence on the selectivity of the binding sites. Given the evolutionary ascendancy of sodium over proton bioenergetics, this structure uncovers an ancient strategy for selective ion coupling in ATP synthases.
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===COMPLETE ION-COORDINATION STRUCTURE IN THE ROTOR RING OF NA-DEPENDENT F-ATP SYNTHASE===
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Complete ion-coordination structure in the rotor ring of Na+-dependent F-ATP synthases.,Meier T, Krah A, Bond PJ, Pogoryelov D, Diederichs K, Faraldo-Gomez JD J Mol Biol. 2009 Aug 14;391(2):498-507. Epub 2009 Jun 3. PMID:19500592<ref>PMID:19500592</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2wgm" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19500592}}, adds the Publication Abstract to the page
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*[[ATPase 3D structures|ATPase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19500592 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19500592}}
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__TOC__
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</StructureSection>
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==About this Structure==
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2WGM is a 44 chains structure of sequences from [http://en.wikipedia.org/wiki/Ilyobacter_tartaricus Ilyobacter tartaricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WGM OCA].
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==Reference==
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<ref group="xtra">PMID:19500592</ref><references group="xtra"/>
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[[Category: Ilyobacter tartaricus]]
[[Category: Ilyobacter tartaricus]]
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[[Category: Diederichs, K.]]
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[[Category: Large Structures]]
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[[Category: Meier, T.]]
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[[Category: Diederichs K]]
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[[Category: Pogoryelov, D.]]
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[[Category: Meier T]]
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[[Category: Atp synthesis]]
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[[Category: Pogoryelov D]]
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[[Category: C-ring structure]]
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[[Category: Cell inner membrane]]
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[[Category: Cell membrane]]
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[[Category: F1fo-atp synthase rotor]]
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[[Category: Hydrogen ion transport]]
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[[Category: Ilyobacter tartaricus]]
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[[Category: Ion coordination and selectivity]]
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[[Category: Ion transport]]
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[[Category: Lipid-binding]]
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[[Category: Membrane]]
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[[Category: Membrane protein]]
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[[Category: Sodium]]
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[[Category: Sodium transport]]
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[[Category: Sodium-motive force]]
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[[Category: Transmembrane]]
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[[Category: Transport]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jun 25 09:07:02 2009''
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Current revision

Complete ion-coordination structure in the rotor ring of Na-dependent F-ATP synthase

PDB ID 2wgm

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