2pry
From Proteopedia
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| - | [[Image:2pry.jpg|left|200px]] | + | [[Image:2pry.jpg|left|200px]] |
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| - | '''Apo form of S. cerevisiae orotate phosphoribosyltransferase''' | + | {{Structure |
| + | |PDB= 2pry |SIZE=350|CAPTION= <scene name='initialview01'>2pry</scene>, resolution 2.350Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene> | ||
| + | |ACTIVITY= [http://en.wikipedia.org/wiki/Orotate_phosphoribosyltransferase Orotate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.10 2.4.2.10] | ||
| + | |GENE= URA5, PYR5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]) | ||
| + | }} | ||
| + | |||
| + | '''Apo form of S. cerevisiae orotate phosphoribosyltransferase''' | ||
| + | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 2PRY is a [ | + | 2PRY is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PRY OCA]. |
==Reference== | ==Reference== | ||
| - | Ternary complex formation and induced asymmetry in orotate phosphoribosyltransferase., Gonzalez-Segura L, Witte JF, McClard RW, Hurley TD, Biochemistry. 2007 Dec 11;46(49):14075-86. Epub 2007 Nov 20. PMID:[http:// | + | Ternary complex formation and induced asymmetry in orotate phosphoribosyltransferase., Gonzalez-Segura L, Witte JF, McClard RW, Hurley TD, Biochemistry. 2007 Dec 11;46(49):14075-86. Epub 2007 Nov 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18020427 18020427] |
[[Category: Orotate phosphoribosyltransferase]] | [[Category: Orotate phosphoribosyltransferase]] | ||
[[Category: Saccharomyces cerevisiae]] | [[Category: Saccharomyces cerevisiae]] | ||
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[[Category: transferase]] | [[Category: transferase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:16:40 2008'' |
Revision as of 16:16, 20 March 2008
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| , resolution 2.350Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Gene: | URA5, PYR5 (Saccharomyces cerevisiae) | ||||||
| Activity: | Orotate phosphoribosyltransferase, with EC number 2.4.2.10 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Apo form of S. cerevisiae orotate phosphoribosyltransferase
Overview
Orotate phosphoribosyltransferase (OPRTase, EC 2.4.2.10) catalyzes the Mg2+-dependent condensation of orotic acid (OA) with PRPP (5-alpha-d-phosphorylribose 1-diphosphate) to yield diphosphate (PPi) and the nucleotide OMP (orotidine 5'-monophosphate). We have determined the structures of three forms of Saccharomyces cerevisiae OPRTase representing different structural and enzymatic intermediates. The structures include the apoenzyme (2.35 A resolution); a ternary complex of enzyme, Mg2+-PRPP, and OA (1.74 A resolution); and the binary product complex of enzyme with OMP (1.89 A resolution). While the overall structure of the S. cerevisiae OPRTase is similar to that of the Salmonella typhimurium enzyme, as judged by comparison of the two apoenzymes, large conformational transitions occur proceeding from the apoenzyme structure to those of the substrate and product complexes. Comparison of these structures reveals a rotation of the upper hood domain onto the bound ligands by an average of 19.5 degrees in the OMP structure and an average of 24.6 degrees in the OA/Mg2+-PRPP ternary complex. As expected, the conserved loop, composed of residues 104-116, moves extensively and adopts a single stable conformation during the catalytic cycle in order to sequester the substrates from bulk solvent in the ternary complex. The OA and Mg2+-PRPP molecules bound in the ternary complex are oriented for proper attack of the N1 atom of OA onto the C1 atom of the ribose ring. This orientation of substrates, combined with the positioning of the flexible loop, provides a clear picture of a catalytically poised reaction complex for type I phosphoribosyltransferases. The structural asymmetry present in these structures, as well as that found in a recent structure of the S. typhimurium enzyme, combined with the closure of the flexible loop from one subunit into the active site of the opposing subunit in the ternary complex is consistent with the kinetic data [McClard, R. W., et al. (2006) Biochemistry 45, 5330-5342] that demonstrate induced nonequivalence and cooperativity of OPRTase.
About this Structure
2PRY is a Single protein structure of sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.
Reference
Ternary complex formation and induced asymmetry in orotate phosphoribosyltransferase., Gonzalez-Segura L, Witte JF, McClard RW, Hurley TD, Biochemistry. 2007 Dec 11;46(49):14075-86. Epub 2007 Nov 20. PMID:18020427
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