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[[Image:4ak7.png|left|200px]]
==Crystal structure of BpGH117_E303Q in complex with neoagarobiose==
<StructureSection load='4ak7' size='340' side='right' caption='[[4ak7]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[4ak7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_plebeius Bacteroides plebeius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AK7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AK7 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=47N:NEOAGAROBIOSE'>47N</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4ak5|4ak5]], [[4ak6|4ak6]]</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=4ak7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ak7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ak7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ak7 PDBsum]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Agars are abundant polysaccharides from marine red algae and their chemical structure consists of alternating D- galactose and 3,6-anhydro-L-galactose residues, the latter of which is presumed to make the polymer recalcitrant to degradation by most terrestrial bacteria. Here we study a family 117 glycoside hydrolase (BpGH117) encoded within a recently discovered locus from the human gut bacterium Bacteroides plebeius. Consistent with this locus being involved in agarocolloid degradation, we show BpGH117 is an exo-acting 3,6-anhydro-alpha-(1,3)-L-galactosidase that removes the 3,6-anhydro-galactose from the non-reducing end of neoagaro-oligosaccharides. A Michaelis-complex of BpGH117 with neoagarobiose reveals the distortion of the constrained 3,6-anhydro-L-galactose into a conformation that favours catalysis. Furthermore, this complex, supported by analysis of site-directed mutants, provides evidence for and organization of the active site and positioning of the catalytic residues that is consistent with an inverting mechanism of catalysis and suggests that a histidine residue acts as the general acid. This latter feature differs from the vast majority of glycoside hydrolases, which use a carboxylic acid, highlighting the alternative strategies that enzymes may employ in catalyzing the cleavage of glycosidic bonds.


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Analysis of a keystone enzyme in agar hydrolysis provides insight into polysaccharide degradation from red seaweeds.,Hehemann JH, Smyth L, Yadav A, Vocadlo DJ, Boraston AB J Biol Chem. 2012 Mar 5. PMID:22393053<ref>PMID:22393053</ref>
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{{STRUCTURE_4ak7|  PDB=4ak7  |  SCENE=  }}


===Crystal structure of BpGH117_E303Q in complex with neoagarobiose===
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>


 
==See Also==
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*[[Galactosidase|Galactosidase]]
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== References ==
(as it appears on PubMed at http://www.pubmed.gov), where 22393053 is the PubMed ID number.
<references/>
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{{ABSTRACT_PUBMED_22393053}}
</StructureSection>
 
==About this Structure==
[[4ak7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_plebeius Bacteroides plebeius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AK7 OCA].
 
==Reference==
<ref group="xtra">PMID:022393053</ref><references group="xtra"/>
[[Category: Bacteroides plebeius]]
[[Category: Bacteroides plebeius]]
[[Category: Boraston, A B.]]
[[Category: Boraston, A B]]
[[Category: Hehemann, J H.]]
[[Category: Hehemann, J H]]
[[Category: Smyth, L.]]
[[Category: Smyth, L]]
[[Category: Vocadlo, D J.]]
[[Category: Vocadlo, D J]]
[[Category: Yadav, A.]]
[[Category: Yadav, A]]
[[Category: Agar metabolism]]
[[Category: Agar metabolism]]
[[Category: Hydrolase]]
[[Category: Hydrolase]]

Revision as of 11:05, 4 January 2015

Crystal structure of BpGH117_E303Q in complex with neoagarobiose

4ak7, resolution 1.80Å

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