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| | ==The crystal structure of L-Sorbose reductase from Gluconobacter frateurii complexed with NADPH and L-sorbose== | | ==The crystal structure of L-Sorbose reductase from Gluconobacter frateurii complexed with NADPH and L-sorbose== |
| - | <StructureSection load='3ai3' size='340' side='right' caption='[[3ai3]], [[Resolution|resolution]] 1.80Å' scene=''> | + | <StructureSection load='3ai3' size='340' side='right'caption='[[3ai3]], [[Resolution|resolution]] 1.80Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3ai3]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_49207 Atcc 49207]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3AI3 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3ai3]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Gluconobacter_frateurii Gluconobacter frateurii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AI3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AI3 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene>, <scene name='pdbligand=SOE:ALPHA-L-SORBOPYRANOSE'>SOE</scene>, <scene name='pdbligand=SOL:L-SORBOSE'>SOL</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]] 1.8Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ai1|3ai1]], [[3ai2|3ai2]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene>, <scene name='pdbligand=SOE:ALPHA-L-SORBOPYRANOSE'>SOE</scene>, <scene name='pdbligand=SOL:L-SORBOSE'>SOL</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">sboA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=38308 ATCC 49207])</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=3ai3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ai3 OCA], [https://pdbe.org/3ai3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ai3 RCSB], [https://www.ebi.ac.uk/pdbsum/3ai3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ai3 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/Sorbose_reductase Sorbose reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.289 1.1.1.289] </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=3ai3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ai3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ai3 RCSB], [http://www.ebi.ac.uk/pdbsum/3ai3 PDBsum]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/A4PB64_9PROT A4PB64_9PROT] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> |
| | </div> | | </div> |
| | + | <div class="pdbe-citations 3ai3" style="background-color:#fffaf0;"></div> |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Atcc 49207]] | + | [[Category: Gluconobacter frateurii]] |
| - | [[Category: Sorbose reductase]] | + | [[Category: Large Structures]] |
| - | [[Category: Kubota, K]] | + | [[Category: Kubota K]] |
| - | [[Category: Miyazono, K]] | + | [[Category: Miyazono K]] |
| - | [[Category: Nagata, K]] | + | [[Category: Nagata K]] |
| - | [[Category: Okai, M]] | + | [[Category: Okai M]] |
| - | [[Category: Tanokura, M]] | + | [[Category: Tanokura M]] |
| - | [[Category: Nadph-dependent reductase]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| - | [[Category: Rossmann-fold]]
| + | |
| - | [[Category: Short chain dehydrogenase/reductase]]
| + | |
| Structural highlights
Function
A4PB64_9PROT
Publication Abstract from PubMed
l-Sorbose reductase from Gluconobacter frateurii (SR) is an NADPH-dependent oxidoreductase. SR preferentially catalyzes the reversible reaction between d-sorbitol and l-sorbose with high substrate specificity. To elucidate the structural basis of the catalytic mechanism and the substrate specificity of SR, we have determined the structures of apo-SR, SR in complex with NADPH, and the inactive mutant (His116Leu) of SR in complex with NADPH and l-sorbose at 2.83 A, 1.90 A, and 1.80 A resolutions, respectively. Our results show that SR belongs to the short-chain dehydrogenase/reductase (SDR) family and forms a tetrameric structure. Although His116 is not conserved among SDR family enzymes, the structures of SR have revealed that His116 is important for the stabilization of the proton relay system and for active-site conformation as a fourth catalytic residue. In the ternary complex structure, l-sorbose is recognized by 11 hydrogen bonds. Site-directed mutagenesis of residues around the l-sorbose-binding site has shown that the loss of almost full enzymatic activity was caused by not only the substitution of putative catalytic residues but also the substitution of the residue used for the recognition of the C4 hydroxyl groups of l-sorbose (Glu154) and of the residues used for the construction of the substrate-binding pocket (Cys146 and Gly188). The recognition of the C4 hydroxyl group of l-sorbose would be indispensable for the substrate specificity of SR, which recognizes only l-sorbose and d-sorbitol but not other sugars. Our results indicated that these residues were crucial for the substrate recognition and specificity of SR.
The crystal structure of l-sorbose reductase from Gluconobacter frateurii complexed with NADPH and l-sorbose.,Kubota K, Nagata K, Okai M, Miyazono K, Soemphol W, Ohtsuka J, Yamamura A, Saichana N, Toyama H, Matsushita K, Tanokura M J Mol Biol. 2011 Apr 8;407(4):543-55. Epub 2011 Jan 26. PMID:21277857[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Kubota K, Nagata K, Okai M, Miyazono K, Soemphol W, Ohtsuka J, Yamamura A, Saichana N, Toyama H, Matsushita K, Tanokura M. The crystal structure of l-sorbose reductase from Gluconobacter frateurii complexed with NADPH and l-sorbose. J Mol Biol. 2011 Apr 8;407(4):543-55. Epub 2011 Jan 26. PMID:21277857 doi:10.1016/j.jmb.2011.01.008
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