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| | <StructureSection load='4pb5' size='340' side='right'caption='[[4pb5]], [[Resolution|resolution]] 1.90Å' scene=''> | | <StructureSection load='4pb5' size='340' side='right'caption='[[4pb5]], [[Resolution|resolution]] 1.90Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4pb5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Delsh Delsh]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PB5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PB5 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4pb5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Delftia_sp._HT23 Delftia sp. HT23]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PB5 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BH2:(3R)-3-HYDROXY-L-ASPARTIC+ACID'>BH2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BH2:(3R)-3-HYDROXY-L-ASPARTIC+ACID'>BH2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3wqc|3wqc]], [[3wqd|3wqd]], [[3wqe|3wqe]], [[3wqf|3wqf]], [[3wqg|3wqg]], [[4pb3|4pb3]], [[4pb4|4pb4]]</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=4pb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pb5 OCA], [https://pdbe.org/4pb5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pb5 RCSB], [https://www.ebi.ac.uk/pdbsum/4pb5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pb5 ProSAT]</span></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dthadh ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=518882 DELSH])</td></tr>
| + | |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threo-3-hydroxy-D-aspartate_ammonia-lyase Threo-3-hydroxy-D-aspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.27 4.3.1.27] </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=4pb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pb5 OCA], [http://pdbe.org/4pb5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4pb5 RCSB], [http://www.ebi.ac.uk/pdbsum/4pb5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4pb5 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/DTHAD_DELSH DTHAD_DELSH] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Delsh]] | + | [[Category: Delftia sp. HT23]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Threo-3-hydroxy-D-aspartate ammonia-lyase]]
| + | [[Category: Matsumoto Y]] |
| - | [[Category: Matsumoto, Y]] | + | [[Category: Wada M]] |
| - | [[Category: Wada, M]] | + | [[Category: Yasutake Y]] |
| - | [[Category: Yasutake, Y]] | + | |
| - | [[Category: Dehydratase]]
| + | |
| - | [[Category: Lyase]]
| + | |
| - | [[Category: Metalloprotein]]
| + | |
| - | [[Category: Plp enzyme]]
| + | |
| Structural highlights
Function
DTHAD_DELSH
Publication Abstract from PubMed
D-threo-3-Hydroxyaspartate dehydratase (D-THA DH) is a fold-type III pyridoxal 5'-phosphate-dependent enzyme, isolated from a soil bacterium of Delftia sp. HT23. It catalyzes the dehydration of D-threo-3-hydroxyaspartate (D-THA) and L-erythro-3-hydroxyaspartate (L-EHA). To elucidate the mechanism of substrate stereospecificity, crystal structures of D-THA DH were determined in complex with various ligands, such as an inhibitor (D-erythro-3-hydroxyaspartate (D-EHA)), a substrate (L-EHA), and the reaction intermediate (2-amino maleic acid). The C beta -OH of L-EHA occupied a position close to the active-site Mg2+, clearly indicating a possibility of metal-assisted C beta -OH elimination from the substrate. In contrast, the C beta -OH of an inhibitor was bound far from the active-site Mg2+. This suggests that the substrate specificity of D-THA DH is determined by the orientation of the C beta -OH at the active site, whose spatial arrangement is compatible with the 3R configuration of 3-hydroxyaspartate. We also report an optically pure synthesis of L-threo-3-hydroxyaspartate (L-THA) and D-EHA, promising intermediates for the synthesis of beta-benzyloxyaspartate, by using a purified D-THA DH as a biocatalyst for the resolution of racemic DL-threo-3-hydroxyaspartate (DL-THA) and DL-erythro-3-hydroxyaspartate (DL-EHA). Considering 50 % of the theoretical maximum, efficient yields of L-THA (38.9 %) and D-EHA (48.9 %) as isolated crystals were achieved with >99 % enantiomeric excess (e.e.). The results of nuclear magnetic resonance signals verified the chemical purity of the products. We were directly able to isolate analytically pure compounds by the recrystallization of acidified reaction mixtures (pH 2.0) and thus avoiding the use of environmentally harmful organic solvents for the chromatographic purification.
Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate.,Matsumoto Y, Yasutake Y, Takeda Y, Tamura T, Yokota A, Wada M Appl Microbiol Biotechnol. 2015 Feb 26. PMID:25715785[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Matsumoto Y, Yasutake Y, Takeda Y, Tamura T, Yokota A, Wada M. Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate. Appl Microbiol Biotechnol. 2015 Feb 26. PMID:25715785 doi:http://dx.doi.org/10.1007/s00253-015-6479-3
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