7by8: Difference between revisions
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<StructureSection load='7by8' size='340' side='right'caption='[[7by8]], [[Resolution|resolution]] 1.94Å' scene=''> | <StructureSection load='7by8' size='340' side='right'caption='[[7by8]], [[Resolution|resolution]] 1.94Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[7by8]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/ | <table><tr><td colspan='2'>[[7by8]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BY8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BY8 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]] 1.945Å</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=7by8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7by8 OCA], [https://pdbe.org/7by8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7by8 RCSB], [https://www.ebi.ac.uk/pdbsum/7by8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7by8 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=7by8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7by8 OCA], [https://pdbe.org/7by8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7by8 RCSB], [https://www.ebi.ac.uk/pdbsum/7by8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7by8 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | == Function == | ||
[https://www.uniprot.org/uniprot/A0A143T1U9_GEOSE A0A143T1U9_GEOSE] Catalyzes the reversible oxidation of malate to oxaloacetate.[HAMAP-Rule:MF_00487] | |||
<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: Geobacillus stearothermophilus]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Himiyama T]] | |||
[[Category: Himiyama | [[Category: Nakamura T]] | ||
[[Category: Nakamura | [[Category: Nishiya Y]] | ||
[[Category: Nishiya | [[Category: Shimozawa Y]] | ||
[[Category: Shimozawa | |||
Latest revision as of 18:40, 29 November 2023
Malate Dehydrogenase from Geobacillus stearothermophilus (gs-MDH)Malate Dehydrogenase from Geobacillus stearothermophilus (gs-MDH)
Structural highlights
FunctionA0A143T1U9_GEOSE Catalyzes the reversible oxidation of malate to oxaloacetate.[HAMAP-Rule:MF_00487] Publication Abstract from PubMedMalate dehydrogenase (MDH) catalyzes the reversible reduction of oxaloacetate (OAA) to L-malate using nicotinamide adenine dinucleotide hydrogen (NADH). MDH has two characteristic loops, the mobile loop and the catalytic loop, in the active site. On binding to the substrate, the enzyme undergoes a structural change from the open-form, with an open conformation of the mobile loop, to the closed-form, with the loop in a closed conformation. In this study, three crystals of MDH from a moderate thermophile, Geobacillus stearothermophilus (gs-MDH) were used to determine four different enzyme structures (resolutions, 1.95-2.20 A), each of which was correspondingly assigned to its four catalytic states. Two OAA-unbound structures exhibited the open-form, while the other two OAA-bound structures exhibited both the open- and closed-form. The structural analysis suggested that the binding of OAA to the open-form gs-MDH promotes conformational change in the mobile loop and simultaneously activates the catalytic loop. The mutations on the key amino acid residues involving the proposed catalytic mechanism significantly affected the gs-MDH activity, supporting our hypothesis. These findings contribute to the elucidation of the detailed molecular mechanism underlying the substrate recognition and structural switching during the MDH catalytic cycle. Structural analysis and reaction mechanism of malate dehydrogenase from Geobacillus stearothermophilus.,Shimozawa Y, Himiyama T, Nakamura T, Nishiya Y J Biochem. 2021 Mar 16. pii: 6173449. doi: 10.1093/jb/mvab027. PMID:33723609[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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