4YJK
Crystal structure of C212S mutant of Shewanella oneidensis MR-1 uridine phosphorylase
Summary for 4YJK
| Entry DOI | 10.2210/pdb4yjk/pdb |
| Related | 4R2W 4R2X |
| Descriptor | Uridine phosphorylase, URACIL, SULFATE ION, ... (4 entities in total) |
| Functional Keywords | uracil, s212c mutant, uridine phosphorylase, transferase |
| Biological source | Shewanella oneidensis (strain MR-1) |
| Total number of polymer chains | 6 |
| Total formula weight | 162370.52 |
| Authors | Safonova, T.N.,Mordkovich, N.N.,Manuvera, V.A.,Dorovatovsky, P.V.,Veiko, V.P.,Popov, V.O.,Polyakov, K.M. (deposition date: 2015-03-03, release date: 2015-03-11, Last modification date: 2024-01-10) |
| Primary citation | Safonova, T.N.,Mordkovich, N.N.,Veiko, V.P.,Okorokova, N.A.,Manuvera, V.A.,Dorovatovskii, P.V.,Popov, V.O.,Polyakov, K.M. Concerted action of two subunits of the functional dimer of Shewanella oneidensis MR-1 uridine phosphorylase derived from a comparison of the C212S mutant and the wild-type enzyme. Acta Crystallogr D Struct Biol, 72:203-210, 2016 Cited by PubMed Abstract: Uridine phosphorylase (UP; EC 2.4.2.3), a key enzyme in the pyrimidine-salvage pathway, catalyzes the reversible phosphorolysis of uridine to uracil and ribose 1-phosphate. The structure of the C212S mutant of uridine phosphorylase from the facultatively aerobic Gram-negative γ-proteobacterium Shewanella oneidensis MR-1 (SoUP) was determined at 1.68 Å resolution. A comparison of the structures of the mutant and the wild-type enzyme showed that one dimer in the mutant hexamer differs from all other dimers in the mutant and wild-type SoUP (both in the free form and in complex with uridine). The key difference is the `maximum open' state of one of the subunits comprising this dimer, which has not been observed previously for uridine phosphorylases. Some conformational features of the SoUP dimer that provide access of the substrate into the active site are revealed. The binding of the substrate was shown to require the concerted action of two subunits of the dimer. The changes in the three-dimensional structure induced by the C212S mutation account for the lower affinity of the mutant for inorganic phosphate, while the affinity for uridine remains unchanged. PubMed: 26894668DOI: 10.1107/S2059798315024353 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.68 Å) |
Structure validation
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