6wpm: Difference between revisions
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==Crystal structure of a putative oligosaccharide periplasmic-binding protein from Synechococcus sp. MITs9220 in complex with zinc== | ==Crystal structure of a putative oligosaccharide periplasmic-binding protein from Synechococcus sp. MITs9220 in complex with zinc== | ||
<StructureSection load='6wpm' size='340' side='right'caption='[[6wpm]]' scene=''> | <StructureSection load='6wpm' size='340' side='right'caption='[[6wpm]], [[Resolution|resolution]] 2.88Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WPM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WPM FirstGlance]. <br> | <table><tr><td colspan='2'>[[6wpm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synsp Synsp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WPM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WPM FirstGlance]. <br> | ||
</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=6wpm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wpm OCA], [https://pdbe.org/6wpm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wpm RCSB], [https://www.ebi.ac.uk/pdbsum/6wpm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wpm ProSAT]</span></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | ||
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | |||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">00121 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1131 SYNSP])</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=6wpm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wpm OCA], [https://pdbe.org/6wpm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wpm RCSB], [https://www.ebi.ac.uk/pdbsum/6wpm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wpm ProSAT]</span></td></tr> | |||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Paradigms of metabolic strategies employed by photoautotrophic marine picocyanobacteria have been challenged in recent years. Based on genomic annotations, picocyanobacteria are predicted to assimilate organic nutrients via ATP-binding cassette importers, a process mediated by substrate-binding proteins. We report the functional characterisation of a modified sugar-binding protein, MsBP, from a marine Synechococcus strain, MITS9220. Ligand screening of MsBP shows a specific affinity for zinc (KD ~ 1.3 muM) and a preference for phosphate-modified sugars, such as fructose-1,6-biphosphate, in the presence of zinc (KD ~ 5.8 muM). Our crystal structures of apo MsBP (no zinc or substrate-bound) and Zn-MsBP (with zinc-bound) show that the presence of zinc induces structural differences, leading to a partially-closed substrate-binding cavity. The Zn-MsBP structure also sequesters several sulphate ions from the crystallisation condition, including two in the binding cleft, appropriately placed to mimic the orientation of adducts of a biphosphate hexose. Combined with a previously unseen positively charged binding cleft in our two structures and our binding affinity data, these observations highlight novel molecular variations on the sugar-binding SBP scaffold. Our findings lend further evidence to a proposed sugar acquisition mechanism in picocyanobacteria alluding to a mixotrophic strategy within these ubiquitous photosynthetic bacteria. | |||
Novel functional insights into a modified sugar-binding protein from Synechococcus MITS9220.,Ford BA, Michie KA, Paulsen IT, Mabbutt BC, Shah BS Sci Rep. 2022 Mar 21;12(1):4805. doi: 10.1038/s41598-022-08459-8. PMID:35314715<ref>PMID:35314715</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 6wpm" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Ford | [[Category: Synsp]] | ||
[[Category: Mabbutt | [[Category: Ford, B A]] | ||
[[Category: Michie | [[Category: Mabbutt, B C]] | ||
[[Category: Paulsen | [[Category: Michie, K A]] | ||
[[Category: Shah | [[Category: Paulsen, I T]] | ||
[[Category: Shah, B S]] | |||
[[Category: Marine cyanobacteria]] | |||
[[Category: Substrate-binding protein]] | |||
[[Category: Sugar-binding protein]] | |||
[[Category: Transport protein]] | |||
Revision as of 11:44, 27 April 2022
Crystal structure of a putative oligosaccharide periplasmic-binding protein from Synechococcus sp. MITs9220 in complex with zinc
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