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3ai2

From Proteopedia

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The crystal structure of L-sorbose reductase from Gluconobacter frateurii complexed with NADPH

Structural highlights

3ai2 is a 8 chain structure with sequence from Gluconobacter frateurii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.9Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

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

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ai2"

@@ Line 1: / Line 1: @@
 ==The crystal structure of L-sorbose reductase from Gluconobacter frateurii complexed with NADPH==
-<StructureSection load='3ai2' size='340' side='right' caption='[[3ai2]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
+<StructureSection load='3ai2' size='340' side='right'caption='[[3ai2]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ai2]] is a 8 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=3AI2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3AI2 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ai2]] is a 8 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=3AI2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AI2 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></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]] 1.9&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ai1|3ai1]], [[3ai3|3ai3]]</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></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=3ai2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ai2 OCA], [https://pdbe.org/3ai2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ai2 RCSB], [https://www.ebi.ac.uk/pdbsum/3ai2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ai2 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=3ai2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ai2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ai2 RCSB], [http://www.ebi.ac.uk/pdbsum/3ai2 PDBsum]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/A4PB64_9PROT A4PB64_9PROT]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 17: / Line 18: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3ai2" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </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]]

3ai2

From Proteopedia

Current revision

The crystal structure of L-sorbose reductase from Gluconobacter frateurii complexed with NADPH

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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