1gxs
From Proteopedia
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| - | [[Image:1gxs.gif|left|200px]] | + | [[Image:1gxs.gif|left|200px]] |
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| - | '''CRYSTAL STRUCTURE OF HYDROXYNITRILE LYASE FROM SORGHUM BICOLOR IN COMPLEX WITH INHIBITOR BENZOIC ACID: A NOVEL CYANOGENIC ENZYME''' | + | {{Structure |
| + | |PDB= 1gxs |SIZE=350|CAPTION= <scene name='initialview01'>1gxs</scene>, resolution 2.30Å | ||
| + | |SITE= <scene name='pdbsite=CA1:Dka+Binding+Site+For+Dimer+Cd'>CA1</scene> | ||
| + | |LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene> and <scene name='pdbligand=DKA:DECANOIC ACID'>DKA</scene> | ||
| + | |ACTIVITY= [http://en.wikipedia.org/wiki/Hydroxymandelonitrile_lyase Hydroxymandelonitrile lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.11 4.1.2.11] | ||
| + | |GENE= | ||
| + | }} | ||
| + | |||
| + | '''CRYSTAL STRUCTURE OF HYDROXYNITRILE LYASE FROM SORGHUM BICOLOR IN COMPLEX WITH INHIBITOR BENZOIC ACID: A NOVEL CYANOGENIC ENZYME''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1GXS is a [ | + | 1GXS is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Sorghum_bicolor Sorghum bicolor]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GXS OCA]. |
==Reference== | ==Reference== | ||
| - | Crystal structure of hydroxynitrile lyase from Sorghum bicolor in complex with the inhibitor benzoic acid: a novel cyanogenic enzyme., Lauble H, Miehlich B, Forster S, Wajant H, Effenberger F, Biochemistry. 2002 Oct 8;41(40):12043-50. PMID:[http:// | + | Crystal structure of hydroxynitrile lyase from Sorghum bicolor in complex with the inhibitor benzoic acid: a novel cyanogenic enzyme., Lauble H, Miehlich B, Forster S, Wajant H, Effenberger F, Biochemistry. 2002 Oct 8;41(40):12043-50. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12356304 12356304] |
[[Category: Hydroxymandelonitrile lyase]] | [[Category: Hydroxymandelonitrile lyase]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: inhibitor complex]] | [[Category: inhibitor complex]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:29:23 2008'' |
Revision as of 09:29, 20 March 2008
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| , resolution 2.30Å | |||||||
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| Sites: | |||||||
| Ligands: | , and | ||||||
| Activity: | Hydroxymandelonitrile lyase, with EC number 4.1.2.11 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
CRYSTAL STRUCTURE OF HYDROXYNITRILE LYASE FROM SORGHUM BICOLOR IN COMPLEX WITH INHIBITOR BENZOIC ACID: A NOVEL CYANOGENIC ENZYME
Overview
The crystal structure of the hydroxynitrile lyase from Sorghum bicolor (SbHNL) in complex with the inhibitor benzoic acid has been determined at 2.3 A resolution and refined to a crystallographic R-factor of 16.5%. The SbHNL sequence places the enzyme in the alpha/beta hydrolase family where the active site nucleophile is predicted to be organized in a characteristic pentapeptide motif which is part of the active site strand-turn-helix motif. In SbHNL, however, a unique two-amino acid deletion is next to the putative active site Ser158, removing thereby the putative oxyanion hole-forming Tyr residue. The presented X-ray structure shows that the overall folding pattern of SbHNL is similar to that of the closely related wheat serine carboxypeptidase (CPD-WII); however, the deletion in SbHNL is forcing the putative active site residues away from the expected hydrolase binding site toward a small hydrophobic cleft, which also contains the inhibitor benzoic acid, defining thereby a completely different SbHNL active site architecture where the traditional view of a classic triad is not given any more. Rather, we propose a mechanism involving general base catalysis by the carboxy-terminal Trp270 carboxyl group and proton transfer toward the leaving nitrile group by an active site water molecule. The unexpected interactions of the inhibitor with the new SbHNL active site also reveal the structural basis for the enzyme's limited substrate specificity. The implications of this structure on the evolution of catalysis in the hydroxynitrile lyase superfamily are discussed.
About this Structure
1GXS is a Single protein structure of sequence from Sorghum bicolor. Full crystallographic information is available from OCA.
Reference
Crystal structure of hydroxynitrile lyase from Sorghum bicolor in complex with the inhibitor benzoic acid: a novel cyanogenic enzyme., Lauble H, Miehlich B, Forster S, Wajant H, Effenberger F, Biochemistry. 2002 Oct 8;41(40):12043-50. PMID:12356304
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