2gq8

[[Image:2gq8.gif|left|200px]]<br /><applet load="2gq8" size="350" color="white" frame="true" align="right" spinBox="true"

caption="2gq8, resolution 1.700&Aring;" />

'''Structure of SYE1, an OYE homologue from S. ondeidensis, in complex with p-hydroxyacetophenone'''<br />

==Overview==

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.

 

==About this Structure==

2GQ8 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis] with <scene name='pdbligand=BOG:'>BOG</scene>, <scene name='pdbligand=SO4:'>SO4</scene>, <scene name='pdbligand=AC6:'>AC6</scene>, <scene name='pdbligand=FMN:'>FMN</scene> and <scene name='pdbligand=TRS:'>TRS</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GQ8 OCA].

 

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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16857682 16857682]

[[Category: Shewanella oneidensis]]

[[Category: Single protein]]

[[Category: Hemel, D.van.den.]]

[[Category: Savvides, S.N.]]

[[Category: AC6]]

[[Category: BOG]]

[[Category: FMN]]

[[Category: flavoenzyme]]

[[Category: fmn]]

[[Category: old yellow enzyme]]

[[Category: phenolic ligands]]