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| | <StructureSection load='6v2n' size='340' side='right'caption='[[6v2n]], [[Resolution|resolution]] 1.65Å' scene=''> | | <StructureSection load='6v2n' size='340' side='right'caption='[[6v2n]], [[Resolution|resolution]] 1.65Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6v2n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6cu4 6cu4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V2N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6V2N FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6v2n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6cu4 6cu4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V2N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6V2N 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=CA:CALCIUM+ION'>CA</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]] 1.65Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pckA, D9G24_04840 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=CA:CALCIUM+ION'>CA</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoenolpyruvate_carboxykinase_(ATP) Phosphoenolpyruvate carboxykinase (ATP)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.49 4.1.1.49] </span></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=6v2n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v2n OCA], [https://pdbe.org/6v2n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6v2n RCSB], [https://www.ebi.ac.uk/pdbsum/6v2n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6v2n ProSAT]</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=6v2n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v2n OCA], [http://pdbe.org/6v2n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v2n RCSB], [http://www.ebi.ac.uk/pdbsum/6v2n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v2n ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/A0A400L9R1_ECOLX A0A400L9R1_ECOLX]] Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA.[HAMAP-Rule:MF_00453] | + | [https://www.uniprot.org/uniprot/PCKA_ECOLI PCKA_ECOLI] |
| | <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: Bacillus coli migula 1895]] | + | [[Category: Escherichia coli]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Cotelesage, J H]] | + | [[Category: Cotelesage JH]] |
| - | [[Category: Goldie, H]] | + | [[Category: Goldie H]] |
| - | [[Category: Novakovski, B]] | + | [[Category: Novakovski B]] |
| - | [[Category: Sanders, D]] | + | [[Category: Sanders D]] |
| - | [[Category: Sokaribo, A S]] | + | [[Category: Sokaribo AS]] |
| - | [[Category: Enzyme]]
| + | |
| - | [[Category: Lyase]]
| + | |
| - | [[Category: Pepcarboxykinase]]
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| Structural highlights
Function
PCKA_ECOLI
Publication Abstract from PubMed
BACKGROUND: Phosphoenolpyruvate carboxykinase (PEPCK) is a metabolic enzyme in the gluconeogenesis pathway, where it catalyzes the reversible conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) and CO2. The substrates for Escherichia coli PEPCK are OAA and MgATP, with Mn(2+) acting as a cofactor. Analysis of PEPCK structures have revealed amino acid residues involved in substrate/cofactor coordination during catalysis. METHODS: Key residues involved in coordinating the different substrates and cofactor bound to E. coli PEPCK were mutated. Purified mutant enzymes were used for kinetic assays. The structure of some mutant enzymes were determined using X-ray crystallography. RESULTS: Mutation of residues D269 and H232, which comprise part of the coordination sphere of Mn(2+), reduced kcat by 14-fold, and significantly increased the Km values for Mn(2+) and OAA. Mutation of K254 a key residue in the P-loop motif that interacts with MgATP, significantly elevated the Km value for MgATP and reduced kcat. R65 and R333 are key residues that interacts with OAA. The R65Q and R333Q mutations significantly increased the Km value for OAA and reduced kcat respectively. CONCLUSIONS: Our results show that mutation of residues involved in coordinating OAA, MgATP and Mn(2+) significantly reduce PEPCK activity. K254 plays an important role in phosphoryl transfer, while R333 is involved in both OAA decarboxylation and phosphoryl transfer by E. coli PEPCK. GENERAL SIGNIFICANCE: In higher organisms including humans, PEPCK helps to regulate blood glucose levels, hence PEPCK is a potential drug target for patients with non-insulin dependent diabetes mellitus.
Kinetic and structural analysis of Escherichia coli phosphoenolpyruvate carboxykinase mutants.,Sokaribo A, Novakovski BAA, Cotelesage J, White AP, Sanders D, Goldie H Biochim Biophys Acta Gen Subj. 2020 Jan 3;1864(4):129517. doi:, 10.1016/j.bbagen.2020.129517. PMID:31911238[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Sokaribo A, Novakovski BAA, Cotelesage J, White AP, Sanders D, Goldie H. Kinetic and structural analysis of Escherichia coli phosphoenolpyruvate carboxykinase mutants. Biochim Biophys Acta Gen Subj. 2020 Jan 3;1864(4):129517. doi:, 10.1016/j.bbagen.2020.129517. PMID:31911238 doi:http://dx.doi.org/10.1016/j.bbagen.2020.129517
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