6hqh
From Proteopedia
(Difference between revisions)
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==Structure of Agrobacterium tumefaciens B6 strain PBP SocA complexed with Deoxyfructosylglutamine (DFG) at 1.8 A resolution== | ==Structure of Agrobacterium tumefaciens B6 strain PBP SocA complexed with Deoxyfructosylglutamine (DFG) at 1.8 A resolution== | ||
| - | <StructureSection load='6hqh' size='340' side='right' caption='[[6hqh]], [[Resolution|resolution]] 1.80Å' scene=''> | + | <StructureSection load='6hqh' size='340' side='right'caption='[[6hqh]], [[Resolution|resolution]] 1.80Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[6hqh]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5l9m 5l9m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HQH FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6hqh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_radiobacter"_(beijerinck_and_van_delden_1902)_bergey_et_al._1934 "achromobacter radiobacter" (beijerinck and van delden 1902) bergey et al. 1934]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5l9m 5l9m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HQH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HQH FirstGlance]. <br> |
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SNW:DEOXYFRUCTOSYLGLUTAMINE'>SNW</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SNW:DEOXYFRUCTOSYLGLUTAMINE'>SNW</scene></td></tr> | ||
| + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SY94_5601 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=358 "Achromobacter radiobacter" (Beijerinck and van Delden 1902) Bergey et al. 1934])</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=6hqh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqh OCA], [http://pdbe.org/6hqh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hqh RCSB], [http://www.ebi.ac.uk/pdbsum/6hqh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqh 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=6hqh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hqh OCA], [http://pdbe.org/6hqh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hqh RCSB], [http://www.ebi.ac.uk/pdbsum/6hqh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hqh ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Agrobacterium tumefaciens pathogens genetically modify their host plants to drive the synthesis of opines in plant tumours. Opines are either sugar-phosphodiesters or the products of condensed amino acids with ketoacids or sugars. They are Agrobacterium nutrients and imported into the bacterial cell via periplasmic binding proteins (PBPs) and ABC-transporters. Mannopine, an opine from the mannityl-opine family, is synthesized from an intermediate named deoxy-fructosyl-glutamine (DFG), which is also an opine and abundant Amadori compound (a name used for any derivative of aminodeoxysugars) present in decaying plant materials. The PBP MotA is responsible for mannopine import in mannopine-assimilating agrobacteria. In the nopaline-opine type agrobacteria strain, SocA protein was proposed as a putative mannopine-binding PBP, and AttC protein was annotated as a mannopine binding-like PBP. Structural data on mannityl-opine-PBP complexes is currently lacking. By combining affinity data with analysis of seven X-ray structures at high resolution, we investigated the molecular basis of MotA, SocA and AttC interactions with mannopine and its DFG precursor. Our work demonstrates that AttC is not a mannopine binding protein, and reveals a specific binding-pocket for DFG in SocA with an affinity in nanomolar range. Hence, mannopine would not be imported into nopaline-type agrobacteria strains. In contrast, MotA binds both mannopine and DFG. We thus defined one mannopine-and two DFG-binding signatures. Unlike mannopine-PBPs, selective DFG-PBPs are present in a wide diversity of bacteria, including Actinobacteria, alpha-,beta-, and gamma-proteobacteria, revealing a common role of this Amadori compound in pathogenic, symbiotic and opportunistic bacteria. | ||
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| + | Structural Basis for High Specificity of Amadori Compound and Mannopine Opine Binding in Bacterial Pathogens.,Marty L, Vigouroux A, Aumont-Nicaise M, Dessaux Y, Faure D, Morera S J Biol Chem. 2016 Sep 8. pii: jbc.M116.745562. PMID:27609514<ref>PMID:27609514</ref> | ||
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| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 6hqh" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| + | [[Category: Large Structures]] | ||
[[Category: Marty, L]] | [[Category: Marty, L]] | ||
[[Category: Morera, S]] | [[Category: Morera, S]] | ||
[[Category: Protein transport]] | [[Category: Protein transport]] | ||
[[Category: Transport protein]] | [[Category: Transport protein]] | ||
Revision as of 08:14, 21 May 2019
Structure of Agrobacterium tumefaciens B6 strain PBP SocA complexed with Deoxyfructosylglutamine (DFG) at 1.8 A resolution
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