3a3y: Difference between revisions

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{{Seed}}
[[Image:3a3y.png|left|200px]]


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==Crystal structure of the sodium-potassium pump with bound potassium and ouabain==
The line below this paragraph, containing "STRUCTURE_3a3y", creates the "Structure Box" on the page.
<StructureSection load='3a3y' size='340' side='right'caption='[[3a3y]], [[Resolution|resolution]] 2.80&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'>[[3a3y]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. The October 2009 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Sodium-Potassium Pump''  by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2009_10 10.2210/rcsb_pdb/mom_2009_10]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A3Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A3Y 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]] 2.8&#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=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OBN:OUABAIN'>OBN</scene></td></tr>
{{STRUCTURE_3a3y|  PDB=3a3y  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3a3y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a3y OCA], [https://pdbe.org/3a3y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a3y RCSB], [https://www.ebi.ac.uk/pdbsum/3a3y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a3y ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q4H132_SQUAC Q4H132_SQUAC]
== 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/a3/3a3y_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=3a3y ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The sodium-potassium pump (Na(+),K(+)-ATPase) is responsible for establishing Na(+) and K(+) concentration gradients across the plasma membrane and therefore plays an essential role in, for instance, generating action potentials. Cardiac glycosides, prescribed for congestive heart failure for more than 2 centuries, are efficient inhibitors of this ATPase. Here we describe a crystal structure of Na(+),K(+)-ATPase with bound ouabain, a representative cardiac glycoside, at 2.8 A resolution in a state analogous to E2.2K(+).Pi. Ouabain is deeply inserted into the transmembrane domain with the lactone ring very close to the bound K(+), in marked contrast to previous models. Due to antagonism between ouabain and K(+), the structure represents a low-affinity ouabain-bound state. Yet, most of the mutagenesis data obtained with the high-affinity state are readily explained by the present crystal structure, indicating that the binding site for ouabain is essentially the same. According to a homology model for the high affinity state, it is a closure of the binding cavity that confers a high affinity.


===Crystal structure of the sodium-potassium pump with bound potassium and ouabain===
Crystal structure of the sodium-potassium pump (Na+,K+-ATPase) with bound potassium and ouabain.,Ogawa H, Shinoda T, Cornelius F, Toyoshima C Proc Natl Acad Sci U S A. 2009 Aug 18;106(33):13742-7. Epub 2009 Aug 3. PMID:19666591<ref>PMID:19666591</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3a3y" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_19666591}}, adds the Publication Abstract to the page
*[[ATPase 3D structures|ATPase 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 19666591 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_19666591}}
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</StructureSection>
==About this Structure==
[[Category: Large Structures]]
3A3Y is a 3 chains structure with sequences from [http://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. The October 2009 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Sodium-Potassium Pump''  by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2009_10 10.2210/rcsb_pdb/mom_2009_10]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A3Y OCA].
 
==Reference==
<ref group="xtra">PMID:19666591</ref><references group="xtra"/>
[[Category: RCSB PDB Molecule of the Month]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: Sodium-Potassium Pump]]
[[Category: Sodium-Potassium Pump]]
[[Category: Squalus acanthias]]
[[Category: Squalus acanthias]]
[[Category: Cornelius, F.]]
[[Category: Cornelius F]]
[[Category: Ogawa, H.]]
[[Category: Ogawa H]]
[[Category: Shinoda, T.]]
[[Category: Shinoda T]]
[[Category: Toyoshima, C.]]
[[Category: Toyoshima C]]
[[Category: Atp-binding]]
[[Category: Atpase]]
[[Category: Haloacid dehydrogenease superfamily]]
[[Category: Hydrolase]]
[[Category: Hydrolase/transport protein complex]]
[[Category: Ion pump]]
[[Category: Ion transport]]
[[Category: K+ binding]]
[[Category: Membrane]]
[[Category: Membrane protein]]
[[Category: Nucleotide-binding]]
[[Category: Ouabain binding]]
[[Category: Phosphate analogue]]
[[Category: Phosphoprotein]]
[[Category: Transmembrane]]
[[Category: Transport]]
 
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Retrieved from "https://proteopedia.org/3a3y"