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| | <StructureSection load='5yn3' size='340' side='right'caption='[[5yn3]], [[Resolution|resolution]] 2.70Å' scene=''> | | <StructureSection load='5yn3' size='340' side='right'caption='[[5yn3]], [[Resolution|resolution]] 2.70Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5yn3]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pirse Pirse]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YN3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5YN3 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5yn3]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Piromyces_sp._E2 Piromyces sp. E2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YN3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YN3 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></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]] 2.7Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">xylA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=73868 PIRSE])</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </span></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=5yn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yn3 OCA], [https://pdbe.org/5yn3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yn3 RCSB], [https://www.ebi.ac.uk/pdbsum/5yn3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yn3 ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5yn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yn3 OCA], [http://pdbe.org/5yn3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yn3 RCSB], [http://www.ebi.ac.uk/pdbsum/5yn3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yn3 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q9P8C9_PIRSE Q9P8C9_PIRSE] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Pirse]] | + | [[Category: Piromyces sp. E2]] |
| - | [[Category: Xylose isomerase]]
| + | [[Category: Kim K-J]] |
| - | [[Category: Kim, K J]] | + | [[Category: Son H-F]] |
| - | [[Category: Son, H F]] | + | |
| - | [[Category: Isomerase]]
| + | |
| Structural highlights
Function
Q9P8C9_PIRSE
Publication Abstract from PubMed
Biofuel production using lignocellulosic biomass is gaining attention because it can be substituted for fossil fuels without competing with edible resources. However, because Saccharomyces cerevisiae does not have a D-xylose metabolic pathway, oxidoreductase or isomerase pathways must be introduced to utilize D-xylose from lignocellulosic biomass in S. cerevisiae. To elucidate the biochemical properties of xylose isomerase (XI) from Piromyces sp. E2 (PsXI), we determine its crystal structure in complex with substrate mimic glycerol. An amino acid sequence comparison with other reported XIs and the relative activity measurements using five kinds of divalent metal ions confirmed that PsXI belongs to class II XI. Moreover kinetic analysis of PsXI was also performed using Mn(2)(+), the preferred divalent metal ion for PsXI. In addition, the substrate-binding mode of PsXI could be predicted with the substrate mimic glycerol bound to the active site. These studies may provide structural information to enhance D-xylose utilization for biofuel production.
Crystal Structure and Biochemical Characterization of Xylose Isomerase from Piromyces sp. E2.,Son H, Lee SM, Kim KJ J Microbiol Biotechnol. 2018 Apr 28;28(4):571-578. doi: 10.4014/jmb.1711.11026. PMID:29385668[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Son H, Lee SM, Kim KJ. Crystal Structure and Biochemical Characterization of Xylose Isomerase from Piromyces sp. E2. J Microbiol Biotechnol. 2018 Apr 28;28(4):571-578. doi: 10.4014/jmb.1711.11026. PMID:29385668 doi:http://dx.doi.org/10.4014/jmb.1711.11026
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