7cd4
From Proteopedia
(Difference between revisions)
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==Crystal structure of the S103F mutant of Bacillus subtilis (natto) YabJ protein.== | ==Crystal structure of the S103F mutant of Bacillus subtilis (natto) YabJ protein.== | ||
| - | <StructureSection load='7cd4' size='340' side='right'caption='[[7cd4]]' scene=''> | + | <StructureSection load='7cd4' size='340' side='right'caption='[[7cd4]], [[Resolution|resolution]] 2.10Å' 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=7CD4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CD4 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[7cd4]] is a 4 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=7CD4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CD4 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=7cd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cd4 OCA], [https://pdbe.org/7cd4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7cd4 RCSB], [https://www.ebi.ac.uk/pdbsum/7cd4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7cd4 ProSAT]</span></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]] 2.1Å</td></tr> |
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BTB:2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>BTB</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7cd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cd4 OCA], [https://pdbe.org/7cd4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7cd4 RCSB], [https://www.ebi.ac.uk/pdbsum/7cd4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7cd4 ProSAT]</span></td></tr> | ||
</table> | </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. | ||
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| + | 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> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 7cd4" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| + | [[Category: Bacillus subtilis subsp. natto BEST195]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Fujimoto Z]] | [[Category: Fujimoto Z]] | ||
[[Category: Kimura K]] | [[Category: Kimura K]] | ||
[[Category: Kishine N]] | [[Category: Kishine N]] | ||
Revision as of 16:05, 29 November 2023
Crystal structure of the S103F mutant of Bacillus subtilis (natto) YabJ protein.
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