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5xwc

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Revision as of 06:28, 9 May 2018

Crystal Structure of Aspergillus niger Glutamate Dehydrogenase Complexed With Alpha-iminoglutarate, 2-amino-2-hydroxyglutarate and NADP

Structural highlights

5xwc is a 1 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

Glutamate dehydrogenase (GDH) is a key enzyme connecting carbon and nitrogen metabolism in all living organisms. Despite extensive studies on GDHs from both prokaryotic and eukaryotic organisms in the last 40 years, the structural basis of the catalytic features of this enzyme remains incomplete. This study reports the structural basis of the GDH catalytic mechanism and allosteric behavior. We determined the first high-resolution crystal structures of glutamate dehydrogenase from the fungus Aspergillus niger (AnGDH), a unique NADP(+)-dependent allosteric enzyme that is forward inhibited by the formation of mixed disulfide. We determined the structures of the active enzyme in its apo form and in binary/ternary complexes with bound substrate (alpha- ketoglutarate), inhibitor (isophthalate), coenzyme (NADPH), or two reaction intermediates (alpha-iminoglutarate and 2-amino-2-hydroxyglutarate). The structure of the forward-inhibited enzyme (fiAnGDH) was also determined. The hexameric AnGDH had three open subunits at one side and three partially closed protomers at the other, a configuration not previously been reported. The AnGDH hexamers having subunits with different conformations indicated that its alpha-ketoglutarate-dependent homotropic cooperativity follows the Monod-Wyman-Changeux (MWC) model. Moreover, the position of the water attached to Asp154 and Gly153 defined the previously unresolved ammonium ion-binding pocket, and the binding site for the 2'-phosphate group of the coenzyme was also better defined by our structural data. Additional structural and mutagenesis experiments identified the residues essential for coenzyme recognition. This study reveals the structural features responsible for positioning alpha-ketoglutarate, NADPH, ammonium ion, and the reaction intermediates in the GDH active site.

Structural basis for the catalytic mechanism and alpha-ketoglutarate cooperativity of glutamate dehydrogenase.,Prakash P, Punekar NS, Bhaumik P J Biol Chem. 2018 Mar 14. pii: RA117.000149. doi: 10.1074/jbc.RA117.000149. PMID:29540480^[1]

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

References

↑ Prakash P, Punekar NS, Bhaumik P. Structural basis for the catalytic mechanism and alpha-ketoglutarate cooperativity of glutamate dehydrogenase. J Biol Chem. 2018 Mar 14. pii: RA117.000149. doi: 10.1074/jbc.RA117.000149. PMID:29540480 doi:http://dx.doi.org/10.1074/jbc.RA117.000149

1 Structural highlights
2 Publication Abstract from PubMed
3 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5xwc"

@@ Line 3: / Line 3: @@
 <StructureSection load='5xwc' size='340' side='right' caption='[[5xwc]], [[Resolution|resolution]] 1.75&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5xwc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/A._niger A. niger]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XWC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XWC FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5xwc]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XWC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XWC FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2IT:(2Z)-2-iminopentanedioic+acid'>2IT</scene>, <scene name='pdbligand=8GL:(2S)-2-azanyl-2-oxidanyl-pentanedioic+acid'>8GL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5xwc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xwc OCA], [http://pdbe.org/5xwc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xwc RCSB], [http://www.ebi.ac.uk/pdbsum/5xwc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xwc ProSAT]</span></td></tr>
@@ Line 20: / Line 20: @@
 __TOC__
 </StructureSection>
-[[Category: A. niger]]
 [[Category: Bhaumik, P]]
 [[Category: Prakash, P]]

5xwc

From Proteopedia

Revision as of 06:28, 9 May 2018

Crystal Structure of Aspergillus niger Glutamate Dehydrogenase Complexed With Alpha-iminoglutarate, 2-amino-2-hydroxyglutarate and NADP

Structural highlights

Publication Abstract from PubMed

References

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