4lr9: Difference between revisions
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New page: {{STRUCTURE_4lr9| PDB=4lr9 | SCENE= }} ===Phosphopentomutase S154A variant soaked with 2,3-dideoxyribose 5-phosphate=== ==Function== [[http://www.uniprot.org/uniprot/DEOB_BACCR DEOB_... |
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== | ==Phosphopentomutase S154A variant soaked with 2,3-dideoxyribose 5-phosphate== | ||
[[http://www.uniprot.org/uniprot/DEOB_BACCR DEOB_BACCR | <StructureSection load='4lr9' size='340' side='right'caption='[[4lr9]], [[Resolution|resolution]] 2.10Å' scene=''> | ||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[4lr9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LR9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4LR9 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]] 2.1Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1X4:2,3-DIDEOXYRIBOSE-5-PHOSPHATE'>1X4</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</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=4lr9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lr9 OCA], [https://pdbe.org/4lr9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4lr9 RCSB], [https://www.ebi.ac.uk/pdbsum/4lr9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4lr9 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/DEOB_BACCR DEOB_BACCR] Phosphotransfer between the C1 and C5 carbon atoms of pentose (By similarity). | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Concatenation of engineered biocatalysts into multistep pathways markedly increases their utility, but the development of generalizable assembly methods remains a major challenge. Herein we evaluate 'bioretrosynthesis', which is an application of the retrograde evolution hypothesis, for biosynthetic pathway construction. To test bioretrosynthesis, we engineered a pathway for synthesis of the antiretroviral nucleoside analog didanosine (2',3'-dideoxyinosine). Applying both directed evolution- and structure-based approaches, we began pathway construction with a retro-extension from an engineered purine nucleoside phosphorylase and evolved 1,5-phosphopentomutase to accept the substrate 2,3-dideoxyribose 5-phosphate with a 700-fold change in substrate selectivity and threefold increased turnover in cell lysate. A subsequent retrograde pathway extension, via ribokinase engineering, resulted in a didanosine pathway with a 9,500-fold change in nucleoside production selectivity and 50-fold increase in didanosine production. Unexpectedly, the result of this bioretrosynthetic step was not a retro-extension from phosphopentomutase but rather the discovery of a fortuitous pathway-shortening bypass via the engineered ribokinase. | |||
Bioretrosynthetic construction of a didanosine biosynthetic pathway.,Birmingham WR, Starbird CA, Panosian TD, Nannemann DP, Iverson TM, Bachmann BO Nat Chem Biol. 2014 Mar 23. doi: 10.1038/nchembio.1494. PMID:24657930<ref>PMID:24657930</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 4lr9" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Bacillus cereus]] | [[Category: Bacillus cereus]] | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: Bachmann | [[Category: Bachmann BO]] | ||
[[Category: Birmingham | [[Category: Birmingham WA]] | ||
[[Category: Iverson | [[Category: Iverson TM]] | ||
[[Category: Nannemann | [[Category: Nannemann DP]] | ||
[[Category: Panosian | [[Category: Panosian TD]] | ||
[[Category: Starbird | [[Category: Starbird CA]] | ||
Latest revision as of 16:24, 20 September 2023
Phosphopentomutase S154A variant soaked with 2,3-dideoxyribose 5-phosphate
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