5zi4: Difference between revisions

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<StructureSection load='5zi4' size='340' side='right'caption='[[5zi4]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
<StructureSection load='5zi4' size='340' side='right'caption='[[5zi4]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[5zi4]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZI4 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5ZI4 FirstGlance]. <br>
<table><tr><td colspan='2'>[[5zi4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZI4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZI4 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OAA:OXALOACETATE+ION'>OAA</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Malate_dehydrogenase Malate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.37 1.1.1.37] </span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OAA:OXALOACETATE+ION'>OAA</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5zi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zi4 OCA], [http://pdbe.org/5zi4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zi4 RCSB], [http://www.ebi.ac.uk/pdbsum/5zi4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zi4 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=5zi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zi4 OCA], [https://pdbe.org/5zi4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zi4 RCSB], [https://www.ebi.ac.uk/pdbsum/5zi4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zi4 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
[https://www.uniprot.org/uniprot/MDHP_YEAST MDHP_YEAST]
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
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</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Malate dehydrogenase]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Mizushima, T]]
[[Category: Mizushima T]]
[[Category: Moriyama, S]]
[[Category: Moriyama S]]
[[Category: Nishio, K]]
[[Category: Nishio K]]
[[Category: Fatty acid oxidation]]
[[Category: Glyoxysome]]
[[Category: Mdh3]]
[[Category: Oxidoreductase]]

Latest revision as of 11:56, 22 November 2023

MDH3 wild type, nad-oaa-formMDH3 wild type, nad-oaa-form

Structural highlights

5zi4 is a 2 chain structure with sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.1Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

MDHP_YEAST

Publication Abstract from PubMed

Malate dehydrogenase (MDH), a carbohydrate and energy metabolism enzyme in eukaryotes, catalyzes the interconversion of malate to oxaloacetate (OAA) in conjunction with that of nicotinamide adenine dinucleotide (NAD(+)) to NADH. Three isozymes of MDH have been reported in Saccharomyces cerevisiae: MDH1, MDH2 and MDH3. MDH1 is a mitochondrial enzyme and a member of the tricarboxylic acid cycle, whereas MDH2 is a cytosolic enzyme that functions in the glyoxylate cycle. MDH3 is a glyoxysomal enzyme that is involved in the reoxidation of NADH, which is produced during fatty-acid beta-oxidation. The affinity of MDH3 for OAA is lower than those of MDH1 and MDH2. Here, the crystal structures of yeast apo MDH3, the MDH3-NAD(+) complex and the MDH3-NAD(+)-OAA ternary complex were determined. The structure of the ternary complex suggests that the active-site loop is in the open conformation, differing from the closed conformations in mitochondrial and cytosolic malate dehydrogenases.

Structure of glyoxysomal malate dehydrogenase (MDH3) from Saccharomyces cerevisiae.,Moriyama S, Nishio K, Mizushima T Acta Crystallogr F Struct Biol Commun. 2018 Oct 1;74(Pt 10):617-624. doi:, 10.1107/S2053230X18011895. Epub 2018 Sep 19. PMID:30279312[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

See Also

References

  1. ↑ Moriyama S, Nishio K, Mizushima T. Structure of glyoxysomal malate dehydrogenase (MDH3) from Saccharomyces cerevisiae. Acta Crystallogr F Struct Biol Commun. 2018 Oct 1;74(Pt 10):617-624. doi:, 10.1107/S2053230X18011895. Epub 2018 Sep 19. PMID:30279312 doi:http://dx.doi.org/10.1107/S2053230X18011895

5zi4, resolution 2.10Å

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