Literature DB >> 18826254

Mechanistic diversity in the RuBisCO superfamily: a novel isomerization reaction catalyzed by the RuBisCO-like protein from Rhodospirillum rubrum.

Heidi J Imker1, Jaya Singh, Benjamin P Warlick, F Robert Tabita, John A Gerlt.   

Abstract

Some homologues of D-ribulose 1,5-bisphosphate carboxylase/oxygenase (RuBisCO) do not catalyze carboxylation and are designated RuBisCO-like proteins (RLPs). The RLP from Rhodospirillum rubrum (gi:83593333) catalyzes a novel isomerization reaction (overall 1,3-proton transfer reaction; likely, two 1,2-proton transfer reactions) that converts 5-methylthio-D-ribulose 1-phosphate to a 3:1 mixture of 1-methylthioxylulose 5-phosphate and 1-methylthioribulose 5-phosphate. Disruption of the gene encoding the RLP abolishes the ability of R. rubrum to utilize 5'-methylthioadenosine as a sole sulfur source, implicating a new, as-yet-uncharacterized, pathway for sulfur salvage.

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Year:  2008        PMID: 18826254      PMCID: PMC2597038          DOI: 10.1021/bi801685f

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  13 in total

1.  Mechanism of Rubisco: The Carbamate as General Base.

Authors:  W. Wallace Cleland; T. John Andrews; Steven Gutteridge; Fred C. Hartman; George H. Lorimer
Journal:  Chem Rev       Date:  1998-04-02       Impact factor: 60.622

Review 2.  Phylogenetic and evolutionary relationships of RubisCO and the RubisCO-like proteins and the functional lessons provided by diverse molecular forms.

Authors:  F Robert Tabita; Thomas E Hanson; Sriram Satagopan; Brian H Witte; Nathan E Kreel
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2008-08-27       Impact factor: 6.237

3.  Side reactions catalyzed by ribulose-bisphosphate carboxylase in the presence and absence of small subunits.

Authors:  M K Morell; J M Wilkin; H J Kane; T J Andrews
Journal:  J Biol Chem       Date:  1997-02-28       Impact factor: 5.157

4.  Prediction of gene function in methylthioadenosine recycling from regulatory signals.

Authors:  Brooke A Murphy; Frank J Grundy; Tina M Henkin
Journal:  J Bacteriol       Date:  2002-04       Impact factor: 3.490

5.  Mechanistic diversity in the RuBisCO superfamily: the "enolase" in the methionine salvage pathway in Geobacillus kaustophilus.

Authors:  Heidi J Imker; Alexander A Fedorov; Elena V Fedorov; Steven C Almo; John A Gerlt
Journal:  Biochemistry       Date:  2007-03-13       Impact factor: 3.162

6.  Crystal structure of a RuBisCO-like protein from the green sulfur bacterium Chlorobium tepidum.

Authors:  Huiying Li; Michael R Sawaya; F Robert Tabita; David Eisenberg
Journal:  Structure       Date:  2005-05       Impact factor: 5.006

7.  A ribulose-1,5-bisphosphate carboxylase/oxygenase (RubisCO)-like protein from Chlorobium tepidum that is involved with sulfur metabolism and the response to oxidative stress.

Authors:  T E Hanson; F R Tabita
Journal:  Proc Natl Acad Sci U S A       Date:  2001-04-03       Impact factor: 11.205

8.  Beta-elimination of phosphate from reaction intermediates by site-directed mutants of ribulose-bisphosphate carboxylase/oxygenase.

Authors:  F W Larimer; M R Harpel; F C Hartman
Journal:  J Biol Chem       Date:  1994-04-15       Impact factor: 5.157

9.  Prediction and assignment of function for a divergent N-succinyl amino acid racemase.

Authors:  Ling Song; Chakrapani Kalyanaraman; Alexander A Fedorov; Elena V Fedorov; Margaret E Glasner; Shoshana Brown; Heidi J Imker; Patricia C Babbitt; Steven C Almo; Matthew P Jacobson; John A Gerlt
Journal:  Nat Chem Biol       Date:  2007-07-01       Impact factor: 15.040

10.  Structure-based activity prediction for an enzyme of unknown function.

Authors:  Johannes C Hermann; Ricardo Marti-Arbona; Alexander A Fedorov; Elena Fedorov; Steven C Almo; Brian K Shoichet; Frank M Raushel
Journal:  Nature       Date:  2007-07-01       Impact factor: 49.962

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  17 in total

Review 1.  Autotrophic carbon fixation in archaea.

Authors:  Ivan A Berg; Daniel Kockelkorn; W Hugo Ramos-Vera; Rafael F Say; Jan Zarzycki; Michael Hügler; Birgit E Alber; Georg Fuchs
Journal:  Nat Rev Microbiol       Date:  2010-05-10       Impact factor: 60.633

2.  Functional assignment of multiple catabolic pathways for D-apiose.

Authors:  Michael S Carter; Xinshuai Zhang; Hua Huang; Jason T Bouvier; Brian San Francisco; Matthew W Vetting; Nawar Al-Obaidi; Jeffrey B Bonanno; Agnidipta Ghosh; Rémi G Zallot; Harvey M Andersen; Steven C Almo; John A Gerlt
Journal:  Nat Chem Biol       Date:  2018-06-04       Impact factor: 15.040

3.  Metabolism: Nothing to waste.

Authors:  Haruyuki Atomi
Journal:  Nat Chem Biol       Date:  2012-11       Impact factor: 15.040

4.  Mechanistic diversity in the RuBisCO superfamily: RuBisCO from Rhodospirillum rubrum is not promiscuous for reactions catalyzed by RuBisCO-like proteins.

Authors:  Benjamin P E Warlick; Heidi J Imker; Jaya Sriram; F Robert Tabita; John A Gerlt
Journal:  Biochemistry       Date:  2012-11-14       Impact factor: 3.162

5.  In Vivo Studies in Rhodospirillum rubrum Indicate That Ribulose-1,5-bisphosphate Carboxylase/Oxygenase (Rubisco) Catalyzes Two Obligatorily Required and Physiologically Significant Reactions for Distinct Carbon and Sulfur Metabolic Pathways.

Authors:  Swati Dey; Justin A North; Jaya Sriram; Bradley S Evans; F Robert Tabita
Journal:  J Biol Chem       Date:  2015-10-28       Impact factor: 5.157

Review 6.  A short history of RubisCO: the rise and fall (?) of Nature's predominant CO2 fixing enzyme.

Authors:  Tobias J Erb; Jan Zarzycki
Journal:  Curr Opin Biotechnol       Date:  2017-08-29       Impact factor: 9.740

7.  MLTreeMap--accurate Maximum Likelihood placement of environmental DNA sequences into taxonomic and functional reference phylogenies.

Authors:  Manuel Stark; Simon A Berger; Alexandros Stamatakis; Christian von Mering
Journal:  BMC Genomics       Date:  2010-08-05       Impact factor: 3.969

Review 8.  The Enzyme Function Initiative.

Authors:  John A Gerlt; Karen N Allen; Steven C Almo; Richard N Armstrong; Patricia C Babbitt; John E Cronan; Debra Dunaway-Mariano; Heidi J Imker; Matthew P Jacobson; Wladek Minor; C Dale Poulter; Frank M Raushel; Andrej Sali; Brian K Shoichet; Jonathan V Sweedler
Journal:  Biochemistry       Date:  2011-10-26       Impact factor: 3.162

9.  1-methylthio-D-xylulose 5-phosphate methylsulfurylase: a novel route to 1-deoxy-D-xylulose 5-phosphate in Rhodospirillum rubrum.

Authors:  Benjamin P Warlick; Bradley S Evans; Tobias J Erb; Udipi A Ramagopal; Jaya Sriram; Heidi J Imker; J Michael Sauder; Jeffrey B Bonanno; Stephen K Burley; F Robert Tabita; Steven C Almo; Jonathan S Sweedler; John A Gerlt
Journal:  Biochemistry       Date:  2012-10-08       Impact factor: 3.162

10.  Roles of RubisCO and the RubisCO-like protein in 5-methylthioadenosine metabolism in the Nonsulfur purple bacterium Rhodospirillum rubrum.

Authors:  Jaya Singh; F Robert Tabita
Journal:  J Bacteriol       Date:  2009-12-28       Impact factor: 3.490

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