7wys: Difference between revisions

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-'''Unreleased structure'''
-The entry 7wys is ON HOLD
+==Crystal structures of Na+,K+-ATPase in complex with istaroxime==
+<StructureSection load='7wys' size='340' side='right'caption='[[7wys]], [[Resolution|resolution]] 3.71&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[7wys]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=7evx 7evx], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=7ddg 7ddg] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6kpy 6kpy]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7WYS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7WYS FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.71&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7Q2:(3E,5S,8R,9S,10R,13S,14S)-3-(2-azanylethoxyimino)-10,13-dimethyl-1,2,4,5,7,8,9,11,12,14,15,16-dodecahydrocyclopenta[a]phenanthrene-6,17-dione'>7Q2</scene>, <scene name='pdbligand=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PCW:1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE'>PCW</scene>, <scene name='pdbligand=PHD:ASPARTYL+PHOSPHATE'>PHD</scene></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=7wys FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7wys OCA], [https://pdbe.org/7wys PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7wys RCSB], [https://www.ebi.ac.uk/pdbsum/7wys PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7wys ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/AT1A1_PIG AT1A1_PIG] This is the catalytic component of the active enzyme, which catalyzes the hydrolysis of ATP coupled with the exchange of sodium and potassium ions across the plasma membrane. This action creates the electrochemical gradient of sodium and potassium ions, providing the energy for active transport of various nutrients.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Cryoelectron microscopy (cryo-EM) was applied to Na+,K+-ATPase (NKA) to determine the structures of two E2P states, one (E2PATP) formed by ATP and Mg2+ in the forward reaction, and the other (E2PPi) formed by inorganic phosphate (Pi) and Mg2+ in the backward reaction, with and without ouabain or istaroxime, representatives of classical and new-generation cardiotonic steroids (CTSs). These two E2P states exhibit different biochemical properties. In particular, K+-sensitive acceleration of the dephosphorylation reaction is not observed with E2PPi, attributed to the presence of a Mg2+ ion in the transmembrane cation binding sites. The cryo-EM structures of NKA demonstrate that the two E2P structures are nearly identical but Mg2+ in the transmembrane binding cavity is identified only in E2PPi, corroborating the idea that it should be denoted as E2PPi.Mg2+. We can now explain why the absence of transmembrane Mg2+ in E2PATP confers the K+ sensitivity in dephosphorylation. In addition, we show that ATP bridges the actuator (A) and nucleotide binding (N) domains, stabilizing the E2PATP state; CTS binding causes hardly any changes in the structure of NKA, both in E2PATP and E2PPi.Mg2+, indicating that the binding mechanism is conformational selection; and istaroxime binds to NKA, extending its aminoalkyloxime group deep into the cation binding site. This orientation is upside down compared to that of classical CTSs with respect to the steroid ring. Notably, mobile parts of NKA are resolved substantially better in the electron microscopy (EM) maps than in previous X-ray structures, including sugars sticking out from the beta-subunit and many phospholipid molecules.
-Authors: Ogawa, H., Cornelius, F., Kanai, R., Motoyama, K., Vilsen, B., Toyoshima, C.
+Cryoelectron microscopy of Na(+),K(+)-ATPase in the two E2P states with and without cardiotonic steroids.,Kanai R, Cornelius F, Vilsen B, Toyoshima C Proc Natl Acad Sci U S A. 2022 Apr 12;119(15):e2123226119. doi: , 10.1073/pnas.2123226119. Epub 2022 Apr 5. PMID:35380894<ref>PMID:35380894</ref>
-Description: Crystal structures of Na+,K+-ATPase in complex with istaroxime
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Cornelius, F]]
+<div class="pdbe-citations 7wys" style="background-color:#fffaf0;"></div>
-[[Category: Ogawa, H]]
-[[Category: Motoyama, K]]
+==See Also==
-[[Category: Toyoshima, C]]
+*[[ATPase 3D structures|ATPase 3D structures]]
-[[Category: Kanai, R]]
+== References ==
-[[Category: Vilsen, B]]
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Sus scrofa]]
+[[Category: Cornelius F]]
+[[Category: Kanai R]]
+[[Category: Motoyama K]]
+[[Category: Ogawa H]]
+[[Category: Toyoshima C]]
+[[Category: Vilsen B]]