Isopropylmalate dehydrogenase: Difference between revisions

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<StructureSection load='' size='350' side='right' caption='3-isopropylmalate dehydrogenase complex with 3-isopropylmalate, glycerol, NAD, PMSF, Mn+2 and K+ ions (purple) (PDB entry [[4f7i]])' scene='49/490899/Cv/1'>
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== Function ==
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'''3-Isopropylmalate dehydrogenase''' (IMDH) catalyzes the oxidative decarboxylation of 3-isopropylmalate (3IPM) to 2-oxo-4-methylvalerate.  This reaction is a step in the biosynthesis of leucine in bacteria and fungi.  IMDH uses [[NAD]] as a cofactor.  IMDH is a bifunctional enzyme that catalyzes dehydrogenation and decarboxylation in the presence of NAD and a divalent cation<ref>PMID:17979826</ref>.
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'''Isopropylmalate dehydrogenase''' (IMDH) catalyzes the oxidative decarboxylation of 3-isopropylmalate (3IPM) to 2-oxo-4-methylvalerate.  This reaction is a step in the biosynthesis of leucine in bacteria and fungi.  IMDH uses NAD as a cofactor.  IMDH is a bifunctional enzyme that catalyzes dehydrogenation and decarboxylation in the presence of NAD and a divalent cation.


== Structural highlights ==
<scene name='49/490899/Cv/11'>3-isopropylmalate dehydrogenase complex with 3-isopropylmalate, glycerol, NAD, PMSF, Mn+2 and K- ions</scene>.
IMDH active site containing the <scene name='49/490899/Cv/9'>NAD cofactor is located between 2 subunits</scene> and contains the substrate and Mn+2 and K- ions<ref>PMID:25211160</ref>. Water molecules shown as red spheres.
<scene name='49/490899/Cv/12'>MN coordination site</scene>.
<scene name='49/490899/Cv/13'>K coordination site</scene>.
<scene name='49/490899/Cv/14'>3-isopropylmalate binding site</scene>.
<scene name='49/490899/Cv/15'>Whole IMDH active site</scene>.
</StructureSection>
==3D structures of isopropylmalate dehydrogenase==
==3D structures of isopropylmalate dehydrogenase==


'''3-isopropylmalate dehydrogenase'''
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
{{#tree:id=OrganizedByTopic|openlevels=0|


[[1ipd]], [[1xaa]], [[1xab]], [[1xac]], [[1xad]], [[1osi]], [[1dpz]], [[1dr0]], [[1dr8]], [[2y3z]] – TtIMDH – ''Thermus thermophilus''<br />
*3-isopropylmalate dehydrogenase
[[1idm]], [[1osj]], [[1wal]], [[1gc8]], [[1gc9]], [[1g2u]] – TtIMDH (mutant) <br />
[[2ayq]], [[1v53]] – BcIMDH – ''Bacillus coagulans''<br />
[[1v5b]] – BcIMDH (mutant) <br />
[[1cm7]] – IMDH – ''Escherichia coli''<br />
[[1vlc]] – IMDH – ''Thermotoga maritima''<br />
[[1v7l]] - IMDH – ''Pyrococcus horikoshii''<br />
[[1w0d]], [[2g4o]] - MtIMDH - ''Mycobacterium tuberculosis''<br />
[[3h5e]], [[3h5h]], [[3h5j]] - MtIMDH small subunit<br />
[[2hcu]] – IMDH small subunit – ''Streptococcus mutans''<br />
[[3q3w]] - IMDH small subunit – ''Campylobacter jejuni''<br />
[[3rsw]] - IMDH – ''Arabidopsis thaliana''<br />
[[3uih]] - IMDH – ''Bacillus''


'''IMDH binary complexes'''
**[[1ipd]], [[1xaa]], [[1xab]], [[1xac]], [[1xad]], [[1osi]], [[1dpz]], [[1dr0]], [[1dr8]], [[2y3z]] – TtIMDH – ''Thermus thermophilus''<br />
**[[1idm]], [[1osj]], [[1wal]], [[1gc8]], [[1gc9]], [[1g2u]] – TtIMDH (mutant) <br />
**[[2ayq]], [[1v53]] – BcIMDH – ''Bacillus coagulans''<br />
**[[1v5b]] – BcIMDH (mutant) <br />
**[[1cm7]] – IMDH – ''Escherichia coli''<br />
**[[1vlc]] – IMDH – ''Thermotoga maritima''<br />
**[[1v7l]] - IMDH – ''Pyrococcus horikoshii''<br />
**[[1w0d]], [[2g4o]] - MtIMDH - ''Mycobacterium tuberculosis''<br />
**[[3h5e]], [[3h5h]], [[3h5j]] - MtIMDH small subunit<br />
**[[2hcu]] – IMDH small subunit – ''Streptococcus mutans''<br />
**[[3q3w]], [[3udu]] - IMDH small subunit – ''Campylobacter jejuni''<br />
**[[3r8w]] - AtIMDH – ''Arabidopsis thaliana''<br />
**[[3u1h]] - IMDH – ''Bacillus''<br />
**[[3vml]] - SoIMDH – ''Shewanella oneidensis/Shewanella benthica''<br />


[[1hex]] – TtIMDH + NAD<BR />
*IMDH binary complexes
[[2y40]] - TtIMDH + Mn<br />
[[1cnz]] – IMDH + Mn – ''Salmonella typhimurium''<br />
[[1wpw]] - IMDH + Mg – ''Sulfolobus tokodaii''<br />
[[2pkp]] - IMDH small subunit + Zn – ''Methanocaldococcus jannaschii''


'''IMDH ternary complexes'''
**[[1hex]] – TtIMDH + NAD<BR />
**[[2y40]] - TtIMDH + Mn<br />
**[[1cnz]] – IMDH + Mn – ''Salmonella typhimurium''<br />
**[[1wpw]] - IMDH + Mg – ''Sulfolobus tokodaii''<br />
**[[2pkp]] - IMDH small subunit + Zn – ''Methanocaldococcus jannaschii''<br />
**[[4iwh]] - BtIMDH + Mg – ''Burkholderia thailandensis''<br />
**[[4xxv]] - BtIMDH + NAD<br />
**[[5j33]] - AtIMDH + NAD<br />
**[[5j34]] - AtIMDH + Mg<br />


[[2y42]] - TtIMDH + Mg + NAD<BR />
*IMDH ternary complexes
[[2ztw]] - TtIMDH + Mg + inhibitor + NAD<BR />
[[2y41]] - TtIMDH + 3IPM + Mn<br />
[[1a05]] – IMDH + 3IPM + Mg - ''Acidithiobacillus ferrooxidans''<br />
[[3vkz]], [[3vl2]], [[3vl3]], [[3vl4]], [[3vl6]], [[3vl7]] - SoIMDH + 3IPM + Ca – ''Shewanella oneidensis''<br />
[[3vmj]] - SoIMDH + 3IPM + Mg<br />
[[3vmk]] - IMDH + 3IPM + Mg – ''Shewanella bethica''


'''2-isopropylmalate dehydrogenase'''
**[[2y42]] - TtIMDH + Mn + NAD<BR />
**[[2ztw]] - TtIMDH + Mg + inhibitor + NAD<BR />
**[[2y41]] - TtIMDH + 3IPM + Mn<br />
**[[4f7i]] - TtIMDH + Mg + 3IPM + NAD<br />
**[[4wuo]] - TtIMDH (mutant) + Mn + 3IPM + NAD<br />
**[[1a05]] – IMDH + 3IPM + Mg - ''Acidithiobacillus ferrooxidans''<br />
**[[3vkz]], [[3vl2]], [[3vl3]], [[3vl4]], [[3vl6]], [[3vl7]] - SoIMDH + 3IPM + Ca <br />
**[[3vmj]], [[3wzw]], [[3wzv]] - SoIMDH + 3IPM + Mg<br />
**[[3wzy]], [[3wzx]] - SoIMDH (mutant) + 3IPM + Mg<br />
**[[3vmk]] - SoIMDH + 3IPM + Mg <br />
**[[4y1p]] - IMDH + 3IPM + Mg – ''Sulfolobus acidarius''<br />
**[[5j32]] - AtIMDH + 3IPM + Mg<br />
**[[6xxy]] - IMDH (mutant) + NAD + isobutenyl oxalylhydroxamate – ''Haemophilus influenzae''<BR />


[[3fig]] - MtIMDH (mutant) + Zn
}}
== References ==
<references/>
[[Category:Topic Page]]

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky, Joel L. Sussman
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