|
|
| Line 3: |
Line 3: |
| | <StructureSection load='5xkc' size='340' side='right'caption='[[5xkc]], [[Resolution|resolution]] 2.21Å' scene=''> | | <StructureSection load='5xkc' size='340' side='right'caption='[[5xkc]], [[Resolution|resolution]] 2.21Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5xkc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XKC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XKC FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5xkc]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XKC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XKC FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5xkd|5xkd]]</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]] 2.209Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">bdsA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=5xkc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xkc OCA], [https://pdbe.org/5xkc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xkc RCSB], [https://www.ebi.ac.uk/pdbsum/5xkc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xkc ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dibenzothiophene_sulfone_monooxygenase Dibenzothiophene sulfone monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.14.22 1.14.14.22] </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=5xkc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xkc OCA], [http://pdbe.org/5xkc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xkc RCSB], [http://www.ebi.ac.uk/pdbsum/5xkc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xkc ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q8GRC7_BACIU Q8GRC7_BACIU] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
| Line 22: |
Line 22: |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Vibrio subtilis ehrenberg 1835]] | + | [[Category: Bacillus subtilis]] |
| - | [[Category: Dibenzothiophene sulfone monooxygenase]]
| + | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Gu, L]] | + | [[Category: Gu L]] |
| - | [[Category: Liu, S]] | + | [[Category: Liu S]] |
| - | [[Category: Su, J]] | + | [[Category: Su J]] |
| - | [[Category: Su, T]] | + | [[Category: Su T]] |
| - | [[Category: Dibenzothiophene desulfurization enzyme]]
| + | |
| - | [[Category: Monooxygenase]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| Structural highlights
Function
Q8GRC7_BACIU
Publication Abstract from PubMed
Dibenzothiophene (DBT) and their derivatives, accounting for the major part of the sulfur components in crude oil, make one of the most significant pollution sources. The DBT sulfone monooxygenase BdsA, one of the key enzymes in the "4S" desulfurization pathway, catalyzes the oxidation of DBT sulfone to 2'-hydroxybiphenyl 2-sulfonic acid (HBPSi). Here, we determined the crystal structure of BdsA from Bacillus subtilis WU-S2B, at the resolution of 2.2 A, and the structure of the BdsA-FMN complex at 2.4 A. BdsA and the BdsA-FMN complex exist as tetramers. DBT sulfone was placed into the active site by molecular docking. Seven residues (Phe12, His20, Phe56, Phe246, Val248, His316, and Val372) are found to be involved in the binding of DBT sulfone. The importance of these residues is supported by the study of the catalytic activity of the active site variants. Structural analysis and enzyme activity assay confirmed the importance of the right position and orientation of FMN and DBT sulfone, as well as the involvement of Ser139 as a nucleophile in catalysis. This work combined with our previous structure of DszC provides a systematic structural basis for the development of engineered desulfurization enzymes with higher efficiency and stability.
Structural and Biochemical Characterization of BdsA from Bacillus subtilis WU-S2B, a Key Enzyme in the "4S" Desulfurization Pathway.,Su T, Su J, Liu S, Zhang C, He J, Huang Y, Xu S, Gu L Front Microbiol. 2018 Feb 15;9:231. doi: 10.3389/fmicb.2018.00231. eCollection, 2018. PMID:29497411[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Su T, Su J, Liu S, Zhang C, He J, Huang Y, Xu S, Gu L. Structural and Biochemical Characterization of BdsA from Bacillus subtilis WU-S2B, a Key Enzyme in the "4S" Desulfurization Pathway. Front Microbiol. 2018 Feb 15;9:231. doi: 10.3389/fmicb.2018.00231. eCollection, 2018. PMID:29497411 doi:http://dx.doi.org/10.3389/fmicb.2018.00231
|
