2jib

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[[Image:2jib.jpg|left|200px]]
[[Image:2jib.jpg|left|200px]]
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{{Structure
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<!--
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|PDB= 2jib |SIZE=350|CAPTION= <scene name='initialview01'>2jib</scene>, resolution 2.20&Aring;
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The line below this paragraph, containing "STRUCTURE_2jib", creates the "Structure Box" on the page.
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|SITE= <scene name='pdbsite=AC1:Pge+Binding+Site+For+Chain+B'>AC1</scene>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=ADP:ADENOSINE-5&#39;-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=COA:COENZYME+A'>COA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Oxalyl-CoA_decarboxylase Oxalyl-CoA decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.8 4.1.1.8] </span>
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or leave the SCENE parameter empty for the default display.
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|GENE=
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-->
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|DOMAIN=
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{{STRUCTURE_2jib| PDB=2jib | SCENE= }}
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|RELATEDENTRY=[[2c31|2C31]], [[2ji6|2JI6]], [[2ji7|2JI7]], [[2ji8|2JI8]], [[2ji9|2JI9]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2jib FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jib OCA], [http://www.ebi.ac.uk/pdbsum/2jib PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2jib RCSB]</span>
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}}
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'''X-RAY STRUCTURE OF OXALYL-COA DECARBOXYLASE IN COMPLEX WITH COENZYME-A'''
'''X-RAY STRUCTURE OF OXALYL-COA DECARBOXYLASE IN COMPLEX WITH COENZYME-A'''
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[[Category: Toyota, C G.]]
[[Category: Toyota, C G.]]
[[Category: Wood, M D.]]
[[Category: Wood, M D.]]
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[[Category: decarboxylase]]
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[[Category: Decarboxylase]]
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[[Category: flavoprotein]]
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[[Category: Flavoprotein]]
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[[Category: lyase]]
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[[Category: Lyase]]
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[[Category: non- oxidative decarboxylase]]
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[[Category: Non- oxidative decarboxylase]]
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[[Category: oxalate degradation]]
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[[Category: Oxalate degradation]]
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[[Category: substrate complex]]
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[[Category: Substrate complex]]
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[[Category: thiamin diphosphate-dependent]]
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[[Category: Thiamin diphosphate-dependent]]
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[[Category: thiamine pyrophosphate]]
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[[Category: Thiamine pyrophosphate]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 08:57:41 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:58:38 2008''
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Revision as of 05:57, 4 May 2008

Image:2jib.jpg

Template:STRUCTURE 2jib

X-RAY STRUCTURE OF OXALYL-COA DECARBOXYLASE IN COMPLEX WITH COENZYME-A


Overview

Despite more than five decades of extensive studies of thiamin diphosphate (ThDP) enzymes, there remain many uncertainties as to how these enzymes achieve their rate enhancements. Here, we present a clear picture of catalysis for the simple nonoxidative decarboxylase, oxalyl-coenzyme A (CoA) decarboxylase, based on crystallographic snapshots along the catalytic cycle and kinetic data on active site mutants. First, we provide crystallographic evidence that, upon binding of oxalyl-CoA, the C-terminal 13 residues fold over the substrate, aligning the substrate alpha-carbon for attack by the ThDP-C2 atom. The second structure presented shows a covalent reaction intermediate after decarboxylation, interpreted as being nonplanar. Finally, the structure of a product complex is presented. In accordance with mutagenesis data, no side chains of the enzyme are implied to directly participate in proton transfer except the glutamic acid (Glu-56), which promotes formation of the 1',4'-iminopyrimidine tautomer of ThDP needed for activation.

About this Structure

2JIB is a Single protein structure of sequence from Oxalobacter formigenes. Full crystallographic information is available from OCA.

Reference

Crystallographic snapshots of oxalyl-CoA decarboxylase give insights into catalysis by nonoxidative ThDP-dependent decarboxylases., Berthold CL, Toyota CG, Moussatche P, Wood MD, Leeper F, Richards NG, Lindqvist Y, Structure. 2007 Jul;15(7):853-61. PMID:17637344 Page seeded by OCA on Sun May 4 08:57:41 2008

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