Literature DB >> 16511035

Preliminary investigation of the three-dimensional structure of Salmonella typhimurium uridine phosphorylase in the crystalline state.

Maria V Dontsova1, Azat G Gabdoulkhakov, Olga K Molchan, Alexandr A Lashkov, Maria B Garber, Alexandr S Mironov, Nadegda E Zhukhlistova, Ekaterina Yu Morgunova, Wolfgang Voelter, Christian Betzel, Yang Zhang, Steven E Ealick, Al'bert M Mikhailov.   

Abstract

Uridine phosphorylase (UPh) catalyzes the phosphorolytic cleavage of the C-N glycosidic bond of uridine to ribose 1-phosphate and uracil in the pyrimidine-salvage pathway. The crystal structure of the Salmonella typhimurium uridine phosphorylase (StUPh) has been determined at 2.5 A resolution and refined to an R factor of 22.1% and an Rfree of 27.9%. The hexameric StUPh displays 32 point-group symmetry and utilizes both twofold and threefold non-crystallographic axes. A phosphate is bound at the active site and forms hydrogen bonds to Arg91, Arg30, Thr94 and Gly26 of one monomer and Arg48 of an adjacent monomer. The hexameric StUPh model reveals a close structural relationship to Escherichia coli uridine phosphorylase (EcUPh).

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Year:  2005        PMID： 16511035      PMCID： PMC1952443          DOI： 10.1107/S1744309105007463

Source DB:  PubMed          Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun        ISSN： 1744-3091


  18 in total

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Authors:  A A Vaguine; J Richelle; S J Wodak
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1999-01-01

2.  Improved methods for building protein models in electron density maps and the location of errors in these models.

Authors:  T A Jones; J Y Zou; S W Cowan; M Kjeldgaard
Journal:  Acta Crystallogr A       Date:  1991-03-01       Impact factor: 2.290

3.  Structures of purine nucleoside phosphorylase from Mycobacterium tuberculosis in complexes with immucillin-H and its pieces.

Authors:  W Shi; L A Basso; D S Santos; P C Tyler; R H Furneaux; J S Blanchard; S C Almo; V L Schramm
Journal:  Biochemistry       Date:  2001-07-27       Impact factor: 3.162

4.  Isolation, crystallization in the macrogravitation field, preliminary X-ray investigation of uridine phosphorylase from Escherichia coli K-12.

Authors:  A M Mikhailov; E A Smirnova; V L Tsuprun; I V Tagunova; B K Vainshtein; E V Linkova; A A Komissarov; Z Z Siprashvili; A S Mironov
Journal:  Biochem Int       Date:  1992-03

Review 5.  Structural analyses reveal two distinct families of nucleoside phosphorylases.

Authors:  Matthew J Pugmire; Steven E Ealick
Journal:  Biochem J       Date:  2002-01-01       Impact factor: 3.857

6.  Comparison of the structure and regulation of the udp gene of Vibrio cholerae, Yersinia pseudotuberculosis, Salmonella typhimurium, and Escherichia coli.

Authors:  Maria Zolotukhina; Irina Ovcharova; Svetlana Eremina; Liubov Errais Lopes; Alexander S Mironov
Journal:  Res Microbiol       Date:  2003-09       Impact factor: 3.992

7.  Crystal structure of the purine nucleoside phosphorylase (PNP) from Cellulomonas sp. and its implication for the mechanism of trimeric PNPs.

Authors:  J Tebbe; A Bzowska; B Wielgus-Kutrowska; W Schröder; Z Kazimierczuk; D Shugar; W Saenger; G Koellner
Journal:  J Mol Biol       Date:  1999-12-17       Impact factor: 5.469

8.  Crystal structures of Escherichia coli uridine phosphorylase in two native and three complexed forms reveal basis of substrate specificity, induced conformational changes and influence of potassium.

Authors:  Tom T Caradoc-Davies; Sue M Cutfield; Iain L Lamont; John F Cutfield
Journal:  J Mol Biol       Date:  2004-03-19       Impact factor: 5.469

9.  Purification, crystallization and preliminary X-ray analysis of uridine phosphorylase from Salmonella typhimurium.

Authors:  Mariya V Dontsova; Yulia A Savochkina; Azat G Gabdoulkhakov; Sergey N Baidakov; Andrey V Lyashenko; Maria Zolotukhina; Liubov Errais Lopes; Mariya B Garber; Ekaterina Yu Morgunova; Stanislav V Nikonov; Alexandr S Mironov; Steven E Ealick; Al 'Bert M Mikhailov
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2004-03-23

10.  Plasmodium falciparum purine nucleoside phosphorylase: crystal structures, immucillin inhibitors, and dual catalytic function.

Authors:  Wuxian Shi; Li-Min Ting; Gregory A Kicska; Andrzej Lewandowicz; Peter C Tyler; Gary B Evans; Richard H Furneaux; Kami Kim; Steve C Almo; Vern L Schramm
Journal:  J Biol Chem       Date:  2004-02-23       Impact factor: 5.157
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  8 in total

1.  Crystallization and preliminary X-ray study of Vibrio cholerae uridine phosphorylase in complex with 6-methyluracil.

Authors:  Igor I Prokofev; Alexander A Lashkov; Azat G Gabdulkhakov; Mariya V Dontsova; Tatyana A Seregina; Alexander S Mironov; Christian Betzel; Al'bert M Mikhailov
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2013-12-24       Impact factor: 1.056

2.  Glycal formation in crystals of uridine phosphorylase.

Authors:  Debamita Paul; Seán E O'Leary; Kanagalaghatta Rajashankar; Weiming Bu; Angela Toms; Ethan C Settembre; Jennie M Sanders; Tadhg P Begley; Steven E Ealick
Journal:  Biochemistry       Date:  2010-04-27       Impact factor: 3.162

3.  The crystal structure of Streptococcus pyogenes uridine phosphorylase reveals a distinct subfamily of nucleoside phosphorylases.

Authors:  Timothy H Tran; S Christoffersen; Paula W Allan; William B Parker; Jure Piskur; I Serra; M Terreni; Steven E Ealick
Journal:  Biochemistry       Date:  2011-07-08       Impact factor: 3.162

4.  Expression, purification, crystallization and preliminary X-ray structure analysis of Vibrio cholerae uridine phosphorylase in complex with thymidine.

Authors:  Alexander A Lashkov; Azat G Gabdulkhakov; Igor I Prokofev; Tatyana A Seregina; Sergey E Sotnichenko; Andrey V Lyashenko; Alexander A Shtil; Alexander S Mironov; Christian Betzel; Al'bert M Mikhailov
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2012-10-30

5.  A novel structural mechanism for redox regulation of uridine phosphorylase 2 activity.

Authors:  Tarmo P Roosild; Samantha Castronovo; Adelbert Villoso; Amy Ziemba; Giuseppe Pizzorno
Journal:  J Struct Biol       Date:  2011-08-10       Impact factor: 2.867

6.  Isolation, crystallization and preliminary crystallographic analysis of Salmonella typhimurium uridine phosphorylase crystallized with 2,2'-anhydrouridine.

Authors:  Vladimir I Timofeev; Alexander A Lashkov; Azat G Gabdoulkhakov; Bogdan Ph Pavlyuk; Galina S Kachalova; Christian Betzel; Ekaterina Yu Morgunova; Nadezhda E Zhukhlistova; Al'bert M Mikhailov
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2007-09-19

7.  Active site conformational dynamics in human uridine phosphorylase 1.

Authors:  Tarmo P Roosild; Samantha Castronovo
Journal:  PLoS One       Date:  2010-09-14       Impact factor: 3.240

8.  Implications of the structure of human uridine phosphorylase 1 on the development of novel inhibitors for improving the therapeutic window of fluoropyrimidine chemotherapy.

Authors:  Tarmo P Roosild; Samantha Castronovo; Michael Fabbiani; Giuseppe Pizzorno
Journal:  BMC Struct Biol       Date:  2009-03-16
  8 in total

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