2gqa: Difference between revisions

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[[Image:2gqa.gif|left|200px]]
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[[Image:2gqa.png|left|200px]]


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{{STRUCTURE_2gqa|  PDB=2gqa  |  SCENE=  }}  
{{STRUCTURE_2gqa|  PDB=2gqa  |  SCENE=  }}  


'''Structure of NADH-reduced SYE1, an OYE homologue from S. oneidensis'''
===Structure of NADH-reduced SYE1, an OYE homologue from S. oneidensis===




==Overview==
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We have recently reported that Shewanella oneidensis, a Gram-negative gamma-proteobacterium with a rich arsenal of redox proteins, possesses four old yellow enzyme (OYE) homologues. Here, we report a series of high resolution crystal structures for one of these OYEs, Shewanella yellow enzyme 1 (SYE1), in its oxidized form at 1.4A resolution, which binds a molecule of PEG 400 in the active site, and in its NADH-reduced and p-hydroxybenzaldehyde- and p-hydroxyacetophenone-bound forms at 1.7A resolution. Although the overall structure of SYE1 reveals a monomeric enzyme based on the alpha(8)beta(8) barrel scaffold observed for other OYEs, the active site exhibits a unique combination of features: a strongly butterfly-bent FMN cofactor both in the oxidized and NADH-reduced forms, a collapsed and narrow active site tunnel, and a novel combination of conserved residues involved in the binding of phenolic ligands. Furthermore, we identify a second p-hydroxybenzaldehyde-binding site in a hydrophobic cleft next to the entry of the active site tunnel in the capping subdomain, formed by a restructuring of Loop 3 to an "open" conformation. This constitutes the first evidence to date for the entire family of OYEs that Loop 3 may indeed play a dynamic role in ligand binding and thus provides insights into the elusive NADH complex and into substrate binding in general. Structure-based sequence alignments indicate that the novelties we observe in SYE1 are supported by conserved residues in a number of structurally uncharacterized OYEs from the beta- and gamma-proteobacteria, suggesting that SYE1 represents a new subfamily of bacterial OYEs.
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{{ABSTRACT_PUBMED_16857682}}


==About this Structure==
==About this Structure==
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[[Category: Old yellow enzyme]]
[[Category: Old yellow enzyme]]
[[Category: Reduction by nadh]]
[[Category: Reduction by nadh]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 05:23:55 2008''
 
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Revision as of 22:18, 28 July 2008

File:2gqa.png

Template:STRUCTURE 2gqa

Structure of NADH-reduced SYE1, an OYE homologue from S. oneidensis

Template:ABSTRACT PUBMED 16857682

About this Structure

2GQA is a Single protein structure of sequence from Shewanella oneidensis. Full crystallographic information is available from OCA.

Reference

Ligand-induced conformational changes in the capping subdomain of a bacterial old yellow enzyme homologue and conserved sequence fingerprints provide new insights into substrate binding., van den Hemel D, Brige A, Savvides SN, Van Beeumen J, J Biol Chem. 2006 Sep 22;281(38):28152-61. Epub 2006 Jul 20. PMID:16857682

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