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Title: Purinyl-cobamide is a native prosthetic group of reductive dehalogenases

Journal Article · · Nature Chemical Biology

Here, cobamides such as vitamin B12 are structurally conserved, cobalt-containing tetrapyrrole biomolecules that have essential biochemical functions in all domains of life. In organohalide respiration, a vital biological process for the global cycling of natural and anthropogenic organohalogens, cobamides are the requisite prosthetic groups for carbon–halogen bond-cleaving reductive dehalogenases. This study reports the biosynthesis of a new cobamide with unsubstituted purine as the lower base and assigns unsubstituted purine a biological function by demonstrating that Coα-purinyl-cobamide (purinyl-Cba) is the native prosthetic group in catalytically active tetrachloroethene reductive dehalogenases of Desulfitobacterium hafniense. Cobamides featuring different lower bases are not functionally equivalent, and purinyl-Cba elicits different physiological responses in corrinoid-auxotrophic, organohalide-respiring bacteria. Given that cobamide-dependent enzymes catalyze key steps in essential metabolic pathways, the discovery of a novel cobamide structure and the realization that lower bases can effectively modulate enzyme activities generate opportunities to manipulate functionalities of microbiomes.

Research Organization:
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)
Sponsoring Organization:
USDOE
Grant/Contract Number:
AC05-00OR22725
OSTI ID:
1471874
Journal Information:
Nature Chemical Biology, Vol. 14, Issue 1; ISSN 1552-4450
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 40 works
Citation information provided by
Web of Science

References (56)

Guided cobalamin biosynthesis supports Dehalococcoides mccartyi reductive dechlorination activity journal April 2013
A family of metal-dependent phosphatases implicated in metabolite damage-control journal June 2016
Refined experimental annotation reveals conserved corrinoid autotrophy in chloroform-respiring Dehalobacter isolates journal November 2016
Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data journal April 2012
Growth Inhibition of Sporomusa ovata by Incorporation of Benzimidazole Bases into Cobamides journal February 2013
Treatment of schistosomiasis by purine nucleoside analogues in combination with nucleoside transport inhibitors journal November 1987
The corrinoid cofactor of reductive dehalogenases affects dechlorination rates and extents in organohalide-respiring Dehalococcoides mccartyi journal November 2015
Identification of a multi-protein reductive dehalogenase complex in D ehalococcoides mccartyi strain CBDB1 suggests a protein-dependent respiratory electron transport chain obviating quinone involvement : Respiratory reductive dehalogenase protein complex journal February 2016
Empirical Statistical Model To Estimate the Accuracy of Peptide Identifications Made by MS/MS and Database Search journal October 2002
Molecular Characterization of the PceA Reductive Dehalogenase of Desulfitobacterium sp. Strain Y51 journal July 2002
Unexpected Specificity of Interspecies Cobamide Transfer from Geobacter spp. to Organohalide-Respiring Dehalococcoides mccartyi Strains journal July 2012
Versatility in Corrinoid Salvaging and Remodeling Pathways Supports Corrinoid-Dependent Metabolism in Dehalococcoides mccartyi journal August 2012
On the Structure of Nebularine. journal January 1953
Vitamin B 12 as a Modulator of Gut Microbial Ecology journal November 2014
The Genetic Basis for Bacterial Mercury Methylation journal February 2013
Vitamin B12: Unique Metalorganic Compounds and the Most Complex Vitamins journal April 2010
Discovery of epoxyqueuosine (oQ) reductase reveals parallels between halorespiration and tRNA modification journal April 2011
Dehalococcoides mccartyi gen. nov., sp. nov., obligately organohalide-respiring anaerobic bacteria relevant to halogen cycling and bioremediation, belong to a novel bacterial class, Dehalococcoidia classis nov., order Dehalococcoidales ord. nov. and family Dehalococcoidaceae fam. nov., within the phylum Chloroflexi journal April 2012
Purinergic signalling and disorders of the central nervous system journal July 2008
Purine and Pyrimidine Nucleotide Synthesis and Metabolism journal January 2002
Which Oxidation State Initiates Dehalogenation in the B12-Dependent Enzyme NpRdhA: Co II , Co I , or Co 0 ? journal November 2015
Anaerobic biosynthesis of the lower ligand of vitamin B 12 journal August 2015
Effect of the H-Bonding on Aromaticity of Purine Tautomers journal April 2012
Complete Genome Sequence of the Dehalorespiring Bacterium Desulfitobacterium hafniense Y51 and Comparison with Dehalococcoides ethenogenes 195 journal March 2006
Extracellular purines, purinergic receptors and tumor growth journal June 2016
Dehalobacter restrictus gen. nov. and sp. nov., a strictly anaerobic bacterium that reductively dechlorinates tetra- and trichloroethene in an anaerobic respiration journal April 1998
The Chemodiversity of Purine as a Constituent of Natural Products journal September 2004
Identification of phenolyl cobamide from the homoacetogenic bacterium Sporomusa ovata journal December 1989
Respiration Without O 2 journal June 1999
Crystal Structure of a Carbon Monoxide Dehydrogenase Reveals a [Ni-4Fe-5S] Cluster journal August 2001
Nebularine from a novelMicrobispora sp. journal December 1986
ChemCalc: A Building Block for Tomorrow’s Chemical Infrastructure journal April 2013
One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products journal May 2000
Analysis of Substrate Specificity in CobT Homologs Reveals Widespread Preference for DMB, the Lower Axial Ligand of Vitamin B12 journal October 2013
Cobamide Structure Depends on Both Lower Ligand Availability and CobT Substrate Specificity journal October 2013
Structural basis for organohalide respiration journal October 2014
Impact of Vitamin B 12 on Formation of the Tetrachloroethene Reductive Dehalogenase in Desulfitobacterium hafniense Strain Y51 journal September 2012
Characterization of the Corrinoid Iron-Sulfur Protein Tetrachloroethene Reductive Dehalogenase of Dehalobacter restrictus journal August 2003
Exogenous 5,6-dimethylbenzimidazole caused production of a non-functional tetrachloroethene reductive dehalogenase in Sulfurospirillum multivorans : DMB affects PCE dechlorination in journal October 2013
The Chemodiversity of Purine as a Constituent of Natural Products journal March 2004
A D esulfitobacterium sp. strain PR reductively dechlorinates both 1,1,1-trichloroethane and chloroform : Strain PR dechlorinates TCA and chloroform journal February 2014
Reductive dehalogenase structure suggests a mechanism for B12-dependent dehalogenation journal October 2014
Structure of the Escherichia coli Fumarate Reductase Respiratory Complex journal June 1999
Environmental Fate of the Next Generation Refrigerant 2,3,3,3-Tetrafluoropropene (HFO-1234yf) journal October 2014
Plant cytotoxicity of nebularine (purine riboside) journal December 1994
Quantitative PCR Targeting 16S rRNA and Reductive Dehalogenase Genes Simultaneously Monitors Multiple Dehalococcoides Strains journal April 2006
Vitamin B12-derivatives—enzyme cofactors and ligands of proteins and nucleic acids journal January 2011
The Desulfitobacterium genus journal September 2006
Biosynthesis of nebularine (purine 9-β-d-ribofuranoside) involves enzymic release of hydroxylamine from adenosine journal January 1995
Isolation and Characterization of Desulfitobacterium sp. strain Y51 Capable of Efficient Dehalogenation of Tetrachloroethene and Polychloroethanes journal January 2001
A Statistical Model for Identifying Proteins by Tandem Mass Spectrometry journal September 2003
A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding journal May 1976
Functional Characterization of Reductive Dehalogenases by Using Blue Native Polyacrylamide Gel Electrophoresis journal November 2012
The Cofactor of Tetrachloroethene Reductive Dehalogenase ofDehalospirillum multivorans Is Norpseudo-B12, a New Type of a Natural Corrinoid journal November 2003
Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega journal January 2011
A Study of the Metabolism of Purine Riboside journal June 1956

Cited By (10)

Guided cobamide biosynthesis for heterologous production of reductive dehalogenases journal December 2018
An integrative overview of genomic, transcriptomic and proteomic analyses in organohalide respiration research journal January 2018
Complete Genome Sequence of Dehalococcoides mccartyi Strain FL2, a Trichloroethene-Respiring Anaerobe Isolated from Pristine Freshwater Sediment journal August 2019
Functional Genomics and Phylogenetic Evidence Suggest Genus-Wide Cobalamin Production by the Globally Distributed Marine Nitrogen Fixer Trichodesmium journal February 2018
Sustained Dechlorination of Vinyl Chloride to Ethene in Dehalococcoides -Enriched Cultures Grown without Addition of Exogenous Vitamins and at Low pH journal August 2019
Cofactor Selectivity in Methylmalonyl Coenzyme A Mutase, a Model Cobamide-Dependent Enzyme journal October 2019
Retroconversion of estrogens into androgens by bacteria via a cobalamin-mediated methylation journal December 2019
Organohalide respiratory chains: composition, topology and key enzymes journal March 2018
Uneven distribution of cobamide biosynthesis and dependence in bacteria predicted by comparative genomics journal November 2018
Microbial Functional Responses to Cholesterol Catabolism in Denitrifying Sludge journal October 2018