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| | ==Discovery and structural characterization of a new glycoside hydrolase family abundant in coastal waters that was annotated as 'hypothetical protein'== | | ==Discovery and structural characterization of a new glycoside hydrolase family abundant in coastal waters that was annotated as 'hypothetical protein'== |
| - | <StructureSection load='3p2n' size='340' side='right' caption='[[3p2n]], [[Resolution|resolution]] 1.95Å' scene=''> | + | <StructureSection load='3p2n' size='340' side='right'caption='[[3p2n]], [[Resolution|resolution]] 1.95Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3p2n]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Zobellia_galactanivorans Zobellia galactanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P2N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3P2N FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3p2n]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Zobellia_galactanivorans Zobellia galactanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P2N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3P2N FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.95Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Zg4663 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63186 Zobellia galactanivorans])</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-neoagaro-oligosaccharide_hydrolase Alpha-neoagaro-oligosaccharide hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.159 3.2.1.159] </span></td></tr>
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3p2n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3p2n OCA], [https://pdbe.org/3p2n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3p2n RCSB], [https://www.ebi.ac.uk/pdbsum/3p2n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3p2n ProSAT]</span></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=3p2n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3p2n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3p2n RCSB], [http://www.ebi.ac.uk/pdbsum/3p2n PDBsum]</span></td></tr> | + | |
| | </table> | | </table> |
| - | <div style="background-color:#fffaf0;">
| + | == Function == |
| - | == Publication Abstract from PubMed == | + | [https://www.uniprot.org/uniprot/F0V1E3_ZOBGA F0V1E3_ZOBGA] |
| - | The genomic data on heterotrophic marine bacteria suggest the crucial role that microbes play in the global carbon cycle. However, the massive presence of hypothetical proteins hampers our understanding of the mechanisms by which this carbon cycle is carried out. Moreover, genomic data from marine microorganisms are essentially annotated in the light of the biochemical knowledge accumulated on bacteria and fungi which decompose terrestrial plants. However marine algal polysaccharides clearly differ from their terrestrial counterparts, and their associated enzymes usually constitute novel protein families. In this study, we have applied a combination of bioinformatics, targeted activity screening and structural biology to characterize a hypothetical protein from the marine bacterium Zobellia galactanivorans, which is distantly related to GH43 family. This protein is in fact a 1,3-alpha-3,6-anhydro-l-galactosidase (AhgA) which catalyses the last step in the degradation pathway of agars, a family of polysaccharides unique to red macroalgae. AhgA adopts a beta-propeller fold and displays a zinc-dependent catalytic machinery. This enzyme is the first representative of a new family of glycoside hydrolases, especially abundant in coastal waters. Such genes of marine origin have been transferred to symbiotic microbes associated with marine fishes, but also with some specific human populations.
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| - | Discovery and structural characterization of a novel glycosidase family of marine origin.,Rebuffet E, Groisillier A, Thompson A, Jeudy A, Barbeyron T, Czjzek M, Michel G Environ Microbiol. 2011 May;13(5):1253-70. doi:, 10.1111/j.1462-2920.2011.02426.x. Epub 2011 Feb 18. PMID:21332624<ref>PMID:21332624</ref>
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| - | </div>
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| | ==See Also== | | ==See Also== |
| - | *[[Galactosidase|Galactosidase]] | + | *[[Galactosidase 3D structures|Galactosidase 3D structures]] |
| - | == References ==
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| - | <references/>
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Alpha-neoagaro-oligosaccharide hydrolase]] | + | [[Category: Large Structures]] |
| | [[Category: Zobellia galactanivorans]] | | [[Category: Zobellia galactanivorans]] |
| - | [[Category: Barbeyron, T]] | + | [[Category: Barbeyron T]] |
| - | [[Category: Czjzek, M]] | + | [[Category: Czjzek M]] |
| - | [[Category: Michel, G]] | + | [[Category: Michel G]] |
| - | [[Category: Rebuffet, E]] | + | [[Category: Rebuffet E]] |
| - | [[Category: 5-bladed beta-propeller]]
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| - | [[Category: 6-anhydro-alpha-l-galactosidase]]
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| - | [[Category: Agaro-oligosaccharide]]
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| - | [[Category: Carbohydrate hydrolase]]
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| - | [[Category: Glycoside hydrolase family gh117]]
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| - | [[Category: Hydrolase]]
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