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| | <StructureSection load='6aip' size='340' side='right'caption='[[6aip]], [[Resolution|resolution]] 1.99Å' scene=''> | | <StructureSection load='6aip' size='340' side='right'caption='[[6aip]], [[Resolution|resolution]] 1.99Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6aip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AIP FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6aip]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AIP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6AIP FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9Z6:(5R,12R,17R)-17-amino-12-carboxy-1,1,5-trihydroxy-4,4-dimethyl-6,10-dioxo-2-oxa-14,15-dithia-7,11-diaza-1-phosphaoctadecan-18-oic+acid+1-oxide+(non-preferred+name)'>9Z6</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]] 1.99Å</td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphopantothenate--cysteine_ligase Phosphopantothenate--cysteine ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.5 6.3.2.5] </span></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=9Z6:(5R,12R,17R)-17-amino-12-carboxy-1,1,5-trihydroxy-4,4-dimethyl-6,10-dioxo-2-oxa-14,15-dithia-7,11-diaza-1-phosphaoctadecan-18-oic+acid+1-oxide+(non-preferred+name)'>9Z6</scene></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=6aip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6aip OCA], [http://pdbe.org/6aip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6aip RCSB], [http://www.ebi.ac.uk/pdbsum/6aip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6aip ProSAT]</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=6aip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6aip OCA], [https://pdbe.org/6aip PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6aip RCSB], [https://www.ebi.ac.uk/pdbsum/6aip PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6aip ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/PPCS_YEAST PPCS_YEAST]] Catalyzes the first step in the biosynthesis of coenzyme A from vitamin B5, where cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine.<ref>PMID:19266201</ref> | + | [https://www.uniprot.org/uniprot/PPCS_YEAST PPCS_YEAST] Catalyzes the first step in the biosynthesis of coenzyme A from vitamin B5, where cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine.<ref>PMID:19266201</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Phosphopantothenate--cysteine ligase]] | + | [[Category: Saccharomyces cerevisiae S288C]] |
| - | [[Category: Zheng, P]] | + | [[Category: Zheng P]] |
| - | [[Category: Zhu, Z]] | + | [[Category: Zhu Z]] |
| - | [[Category: Complex]]
| + | |
| - | [[Category: Ligase]]
| + | |
| - | [[Category: Phosphopantothenoylcystine]]
| + | |
| Structural highlights
Function
PPCS_YEAST Catalyzes the first step in the biosynthesis of coenzyme A from vitamin B5, where cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine.[1]
Publication Abstract from PubMed
Phosphopantothenoylcysteine (PPC) synthetase (PPCS) catalyzes nucleoside triphosphate-dependent condensation reaction between 4'-phosphopantothenate (PPA) and l-cysteine to form PPC in CoA biosynthesis. The catalytic mechanism of PPCS has not been resolved yet. Coenzyme A biosynthesis protein 2 (Cab2) possesses activity of PPCS in Saccharomyces cerevisiae. Our enzymatic assays suggest that Cab2 could utilize both ATP and CTP to activate PPA in vitro. The results of isothermal titration calorimetry indicate that PPA, CTP, and ATP could bind to Cab2 individually, with PPA having the highest binding affinity. To provide further insight into the catalytic mechanism of Cab2, we determined the crystal structures of Cab2 and its complex with PPA, the reaction intermediate 4'-phosphopantothenoyl-CMP, the final reaction product PPC, and the product analogue phosphopantothenoylcystine. Except for PPA, all other ligands were generated in situ and present in the active-site pocket of Cab2. Structures of Cab2 in complex with ligands provide insight into substrates binding and its catalytic mechanism. Analysis of structures indicates that the carboxyl of PPA-moiety of ligands and the gamma-amino group of Asn97 possess different conformations in these complex structures. The cysteine/cystine/serine selectivity assays for Cab2 indicate that the amino group rather than the thiol group of l-cysteine attacks the carbonyl of 4'-phosphopantothenoyl-CMP to form PPC. Based on structural and biochemical data, the catalytic mechanism of Cab2 was proposed for the first time.
Crystallographic Analysis of the Catalytic Mechanism of Phosphopantothenoylcysteine Synthetase from Saccharomyces cerevisiae.,Zheng P, Zhang M, Khan MH, Liu H, Jin Y, Yue J, Gao Y, Teng M, Zhu Z, Niu L J Mol Biol. 2019 Feb 15;431(4):764-776. doi: 10.1016/j.jmb.2019.01.012. Epub 2019, Jan 14. PMID:30653991[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Olzhausen J, Schubbe S, Schuller HJ. Genetic analysis of coenzyme A biosynthesis in the yeast Saccharomyces cerevisiae: identification of a conditional mutation in the pantothenate kinase gene CAB1. Curr Genet. 2009 Apr;55(2):163-73. doi: 10.1007/s00294-009-0234-1. Epub 2009 Mar , 6. PMID:19266201 doi:http://dx.doi.org/10.1007/s00294-009-0234-1
- ↑ Zheng P, Zhang M, Khan MH, Liu H, Jin Y, Yue J, Gao Y, Teng M, Zhu Z, Niu L. Crystallographic Analysis of the Catalytic Mechanism of Phosphopantothenoylcysteine Synthetase from Saccharomyces cerevisiae. J Mol Biol. 2019 Feb 15;431(4):764-776. doi: 10.1016/j.jmb.2019.01.012. Epub 2019, Jan 14. PMID:30653991 doi:http://dx.doi.org/10.1016/j.jmb.2019.01.012
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