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| | ==Crystal structure of Escherichia coli ketopantoate reductase in a ternary complex with NADP+ and pantoate== | | ==Crystal structure of Escherichia coli ketopantoate reductase in a ternary complex with NADP+ and pantoate== |
| - | <StructureSection load='2ofp' size='340' side='right' caption='[[2ofp]], [[Resolution|resolution]] 2.30Å' scene=''> | + | <StructureSection load='2ofp' size='340' side='right'caption='[[2ofp]], [[Resolution|resolution]] 2.30Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2ofp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OFP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OFP FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2ofp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OFP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OFP FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PAF:PANTOATE'>PAF</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]] 2.3Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1ks9|1ks9]], [[1yjq|1yjq]], [[1yon|1yon]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PAF:PANTOATE'>PAF</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">panE, apbA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=2ofp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ofp OCA], [https://pdbe.org/2ofp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ofp RCSB], [https://www.ebi.ac.uk/pdbsum/2ofp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ofp 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/2-dehydropantoate_2-reductase 2-dehydropantoate 2-reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.169 1.1.1.169] </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=2ofp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ofp OCA], [http://pdbe.org/2ofp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ofp RCSB], [http://www.ebi.ac.uk/pdbsum/2ofp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ofp ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/PANE_ECOLI PANE_ECOLI]] Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid. | + | [https://www.uniprot.org/uniprot/PANE_ECOLI PANE_ECOLI] Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: 2-dehydropantoate 2-reductase]] | + | [[Category: Escherichia coli K-12]] |
| - | [[Category: Ecoli]] | + | [[Category: Large Structures]] |
| - | [[Category: Abell, C]] | + | [[Category: Abell C]] |
| - | [[Category: Blundell, T L]] | + | [[Category: Blundell TL]] |
| - | [[Category: Chirgadze, D Y]] | + | [[Category: Chirgadze DY]] |
| - | [[Category: Ciulli, A]] | + | [[Category: Ciulli A]] |
| - | [[Category: Smith, A G]] | + | [[Category: Smith AG]] |
| - | [[Category: Apba]]
| + | |
| - | [[Category: Ketopantoate reductase]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| - | [[Category: Pane]]
| + | |
| - | [[Category: Ternary complex]]
| + | |
| Structural highlights
Function
PANE_ECOLI Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid.
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Ketopantoate reductase (KPR, EC 1.1.1.169) catalyzes the NADPH-dependent reduction of ketopantoate to pantoate, an essential step for the biosynthesis of pantothenate (vitamin B5). Inhibitors of the enzymes of this pathway have been proposed as potential antibiotics or herbicides. Here we present the crystal structure of Escherichia coli KPR in a precatalytic ternary complex with NADP+ and pantoate bound, solved to 2.3 A of resolution. The asymmetric unit contains two protein molecules, each in a ternary complex; however, one is in a more closed conformation than the other. A hinge bending between the N- and C-terminal domains is observed, which triggers the switch of the essential Lys176 to form a key hydrogen bond with the C2 hydroxyl of pantoate. Pantoate forms additional interactions with conserved residues Ser244, Asn98, and Asn180 and with two conservatively varied residues, Asn194 and Asn241. The steady-state kinetics of active site mutants R31A, K72A, N98A, K176A, S244A, and E256A implicate Asn98 as well as Lys176 and Glu256 in the catalytic mechanism. Isothermal titration calorimetry studies with these mutants further demonstrate the importance of Ser244 for substrate binding and of Arg31 and Lys72 for cofactor binding. Further calorimetric studies show that KPR discriminates binding of ketopantoate against pantoate only with NADPH bound. This work provides insights into the roles of active site residues and conformational changes in substrate recognition and catalysis, leading to the proposal of a detailed molecular mechanism for KPR activity.
Crystal structure of Escherichia coli ketopantoate reductase in a ternary complex with NADP+ and pantoate bound: substrate recognition, conformational change, and cooperativity.,Ciulli A, Chirgadze DY, Smith AG, Blundell TL, Abell C J Biol Chem. 2007 Mar 16;282(11):8487-97. Epub 2007 Jan 16. PMID:17229734[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Ciulli A, Chirgadze DY, Smith AG, Blundell TL, Abell C. Crystal structure of Escherichia coli ketopantoate reductase in a ternary complex with NADP+ and pantoate bound: substrate recognition, conformational change, and cooperativity. J Biol Chem. 2007 Mar 16;282(11):8487-97. Epub 2007 Jan 16. PMID:17229734 doi:10.1074/jbc.M611171200
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