5y6u
From Proteopedia
(Difference between revisions)
(New page: '''Unreleased structure''' The entry 5y6u is ON HOLD until Paper Publication Authors: Fujimoto, Z., Kishine, N., Kimura, K. Description: Crystal structure of wild-type YabJ protein fro...) |
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| - | '''Unreleased structure''' | ||
| - | + | ==Crystal structure of wild-type YabJ protein from Bacillus subtilis (natto).== | |
| + | <StructureSection load='5y6u' size='340' side='right'caption='[[5y6u]], [[Resolution|resolution]] 1.50Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[5y6u]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._natto_BEST195 Bacillus subtilis subsp. natto BEST195]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y6U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Y6U FirstGlance]. <br> | ||
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5Å</td></tr> | ||
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene></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=5y6u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y6u OCA], [https://pdbe.org/5y6u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5y6u RCSB], [https://www.ebi.ac.uk/pdbsum/5y6u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5y6u ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/D4G3D4_BACNB D4G3D4_BACNB] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Bacillus subtilis YabJ protein belongs to the highly conserved YjgF/YER057c/UK114 family, which has a homotrimeric quaternary structure. The dominant allele of yabJ gene that is caused by a single amino acid mutation of Ser103Phe enables poly-gamma-glutamic acid (gammaPGA) production of B. subtilis under conditions where the cell-density signal transduction was disturbed by the loss of DegQ function. X-ray crystallography of recombinant proteins revealed that unlike the homotrimeric wild-type YabJ, the mutant YabJ(Ser103Phe) had a homotetrameric quaternary structure, and the structural change appeared to be triggered by an inversion of the fifth beta-strand. The YabJ homotetramer has a hole that is highly accessible, penetrating through the tetramer, and 2 surface concaves as potential ligand-binding sites. Western blot analyses revealed that the conformational change was also induced in vivo by the Ser103Phe mutation. | ||
| - | + | Tetramer formation of Bacillus subtilis YabJ protein that belongs to YjgF/YER057c/UK114 family.,Fujimoto Z, Hong LTT, Kishine N, Suzuki N, Kimura K Biosci Biotechnol Biochem. 2021 Feb 18;85(2):297-306. doi: 10.1093/bbb/zbaa037. PMID:33590041<ref>PMID:33590041</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | [[Category: | + | </div> |
| - | [[Category: | + | <div class="pdbe-citations 5y6u" style="background-color:#fffaf0;"></div> |
| - | [[Category: Fujimoto | + | == References == |
| - | [[Category: Kimura | + | <references/> |
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Bacillus subtilis subsp. natto BEST195]] | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Fujimoto Z]] | ||
| + | [[Category: Kimura K]] | ||
| + | [[Category: Kishine N]] | ||
Current revision
Crystal structure of wild-type YabJ protein from Bacillus subtilis (natto).
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