3vr3: Difference between revisions
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<StructureSection load='3vr3' size='340' side='right'caption='[[3vr3]], [[Resolution|resolution]] 3.40Å' scene=''> | <StructureSection load='3vr3' size='340' side='right'caption='[[3vr3]], [[Resolution|resolution]] 3.40Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3vr3]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/ | <table><tr><td colspan='2'>[[3vr3]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterococcus_hirae Enterococcus hirae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VR3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VR3 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.4Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=3vr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vr3 OCA], [https://pdbe.org/3vr3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vr3 RCSB], [https://www.ebi.ac.uk/pdbsum/3vr3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vr3 ProSAT]</span></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=3vr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vr3 OCA], [https://pdbe.org/3vr3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vr3 RCSB], [https://www.ebi.ac.uk/pdbsum/3vr3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vr3 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | == Function == | ||
[https://www.uniprot.org/uniprot/NTPA_ENTHA NTPA_ENTHA] Involved in ATP-driven sodium extrusion. | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Enterococcus hirae]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Arai S]] | |||
[[Category: Arai | [[Category: Ishizuka-Katsura Y]] | ||
[[Category: Ishizuka-Katsura | [[Category: Iwata S]] | ||
[[Category: Iwata | [[Category: Kakinuma Y]] | ||
[[Category: Kakinuma | [[Category: Mizutani K]] | ||
[[Category: Mizutani | [[Category: Murata T]] | ||
[[Category: Murata | [[Category: Ohsawa N]] | ||
[[Category: Ohsawa | [[Category: Saijo S]] | ||
[[Category: Saijo | [[Category: Shirouzu M]] | ||
[[Category: Shirouzu | [[Category: Suzuki K]] | ||
[[Category: Suzuki | [[Category: Terada T]] | ||
[[Category: Terada | [[Category: Yamato I]] | ||
[[Category: Yamato | [[Category: Yokoyama S]] | ||
[[Category: Yokoyama | |||
Latest revision as of 15:33, 8 November 2023
Crystal structure of AMP-PNP bound A3B3 complex from Enterococcus hirae V-ATPase [bA3B3]Crystal structure of AMP-PNP bound A3B3 complex from Enterococcus hirae V-ATPase [bA3B3]
Structural highlights
FunctionNTPA_ENTHA Involved in ATP-driven sodium extrusion. Publication Abstract from PubMedIn various cellular membrane systems, vacuolar ATPases (V-ATPases) function as proton pumps, which are involved in many processes such as bone resorption and cancer metastasis, and these membrane proteins represent attractive drug targets for osteoporosis and cancer. The hydrophilic V(1) portion is known as a rotary motor, in which a central axis DF complex rotates inside a hexagonally arranged catalytic A(3)B(3) complex using ATP hydrolysis energy, but the molecular mechanism is not well defined owing to a lack of high-resolution structural information. We previously reported on the in vitro expression, purification and reconstitution of Enterococcus hirae V(1)-ATPase from the A(3)B(3) and DF complexes. Here we report the asymmetric structures of the nucleotide-free (2.8 A) and nucleotide-bound (3.4 A) A(3)B(3) complex that demonstrate conformational changes induced by nucleotide binding, suggesting a binding order in the right-handed rotational orientation in a cooperative manner. The crystal structures of the nucleotide-free (2.2 A) and nucleotide-bound (2.7 A) V(1)-ATPase are also reported. The more tightly packed nucleotide-binding site seems to be induced by DF binding, and ATP hydrolysis seems to be stimulated by the approach of a conserved arginine residue. To our knowledge, these asymmetric structures represent the first high-resolution view of the rotational mechanism of V(1)-ATPase. Rotation mechanism of Enterococcus hirae V1-ATPase based on asymmetric crystal structures.,Arai S, Saijo S, Suzuki K, Mizutani K, Kakinuma Y, Ishizuka-Katsura Y, Ohsawa N, Terada T, Shirouzu M, Yokoyama S, Iwata S, Yamato I, Murata T Nature. 2013 Jan 31;493(7434):703-7. doi: 10.1038/nature11778. Epub 2013 Jan 13. PMID:23334411[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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