Literature DB >> 18813363

Fe(II)/alpha-ketoglutarate hydroxylases involved in nucleobase, nucleoside, nucleotide, and chromatin metabolism.

Jana M Simmons1, Tina A Müller, Robert P Hausinger.   

Abstract

Fe(II)/alpha-ketoglutarate-dependent hydroxylases uniformly possess a double-stranded beta-helix fold with two conserved histidines and one carboxylate coordinating their mononuclear ferrous ions. Oxidative decomposition of the alpha-keto acid is proposed to generate a ferryl-oxo intermediate capable of hydroxylating unactivated carbon atoms in a myriad of substrates. This Perspective focuses on a subgroup of these enzymes that are involved in pyrimidine salvage, purine decomposition, nucleoside and nucleotide hydroxylation, DNA/RNA repair, and chromatin modification. The varied reaction schemes are presented, and selected structural and kinetic information is summarized.

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Year:  2008        PMID: 18813363      PMCID: PMC2907160          DOI: 10.1039/b803512a

Source DB:  PubMed          Journal:  Dalton Trans        ISSN: 1477-9226            Impact factor:   4.390


  98 in total

1.  Oxygenases involved in thymine and thymidine metabolism in Neurospora crassa.

Authors:  L Bankel; E Holme; G Lindstedt; S Lindstedt
Journal:  FEBS Lett       Date:  1972-03-15       Impact factor: 4.124

2.  Histone demethylation by a family of JmjC domain-containing proteins.

Authors:  Yu-ichi Tsukada; Jia Fang; Hediye Erdjument-Bromage; Maria E Warren; Christoph H Borchers; Paul Tempst; Yi Zhang
Journal:  Nature       Date:  2005-12-18       Impact factor: 49.962

3.  A new gene (alkB) of Escherichia coli that controls sensitivity to methyl methane sulfonate.

Authors:  H Kataoka; Y Yamamoto; M Sekiguchi
Journal:  J Bacteriol       Date:  1983-03       Impact factor: 3.490

4.  Structure of factor-inhibiting hypoxia-inducible factor 1: An asparaginyl hydroxylase involved in the hypoxic response pathway.

Authors:  Charles E Dann; Richard K Bruick; Johann Deisenhofer
Journal:  Proc Natl Acad Sci U S A       Date:  2002-11-13       Impact factor: 11.205

5.  Tandemly repeated DNA is a target for the partial replacement of thymine by beta-D-glucosyl-hydroxymethyluracil in Trypanosoma brucei.

Authors:  F van Leeuwen; R Kieft; M Cross; P Borst
Journal:  Mol Biochem Parasitol       Date:  2000-07       Impact factor: 1.759

6.  A non-heme iron protein with heme tendencies: an investigation of the substrate specificity of thymine hydroxylase.

Authors:  L D Thornburg; M T Lai; J S Wishnok; J Stubbe
Journal:  Biochemistry       Date:  1993-12-21       Impact factor: 3.162

Review 7.  Structural studies on 2-oxoglutarate oxygenases and related double-stranded beta-helix fold proteins.

Authors:  Ian J Clifton; Michael A McDonough; Dominic Ehrismann; Nadia J Kershaw; Nicolas Granatino; Christopher J Schofield
Journal:  J Inorg Biochem       Date:  2006-03-02       Impact factor: 4.155

8.  Kinetic studies of Escherichia coli AlkB using a new fluorescence-based assay for DNA demethylation.

Authors:  Todd W Roy; A S Bhagwat
Journal:  Nucleic Acids Res       Date:  2007-11-14       Impact factor: 16.971

9.  The FTO (fat mass and obesity associated) gene codes for a novel member of the non-heme dioxygenase superfamily.

Authors:  Luis Sanchez-Pulido; Miguel A Andrade-Navarro
Journal:  BMC Biochem       Date:  2007-11-08       Impact factor: 4.059

10.  Phylogenomic identification of five new human homologs of the DNA repair enzyme AlkB.

Authors:  Michal A Kurowski; Ashok S Bhagwat; Grzegorz Papaj; Janusz M Bujnicki
Journal:  BMC Genomics       Date:  2003-12-10       Impact factor: 3.969

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  24 in total

1.  Interaction of JMJD6 with single-stranded RNA.

Authors:  Xia Hong; Jianye Zang; Janice White; Chao Wang; Cheol-Ho Pan; Rui Zhao; Robert C Murphy; Shaodong Dai; Peter Henson; John W Kappler; James Hagman; Gongyi Zhang
Journal:  Proc Natl Acad Sci U S A       Date:  2010-08-02       Impact factor: 11.205

2.  Clipping of arginine-methylated histone tails by JMJD5 and JMJD7.

Authors:  Haolin Liu; Chao Wang; Schuyler Lee; Yu Deng; Matthew Wither; Sangphil Oh; Fangkun Ning; Carissa Dege; Qianqian Zhang; Xinjian Liu; Aaron M Johnson; Jianye Zang; Zhongzhou Chen; Ralf Janknecht; Kirk Hansen; Philippa Marrack; Chuan-Yuan Li; John W Kappler; James Hagman; Gongyi Zhang
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-28       Impact factor: 11.205

3.  Thymine DNA glycosylase can rapidly excise 5-formylcytosine and 5-carboxylcytosine: potential implications for active demethylation of CpG sites.

Authors:  Atanu Maiti; Alexander C Drohat
Journal:  J Biol Chem       Date:  2011-08-23       Impact factor: 5.157

4.  Human AlkB homologue 1 (ABH1) exhibits DNA lyase activity at abasic sites.

Authors:  Tina A Müller; Katheryn Meek; Robert P Hausinger
Journal:  DNA Repair (Amst)       Date:  2009-12-02

Review 5.  5-Hydroxymethylcytosine--the elusive epigenetic mark in mammalian DNA.

Authors:  Edita Kriukienė; Zita Liutkevičiūtė; Saulius Klimašauskas
Journal:  Chem Soc Rev       Date:  2012-07-27       Impact factor: 54.564

6.  Vitamin C promotes maturation of T-cells.

Authors:  Jared Manning; Birgitta Mitchell; Daniel A Appadurai; Arvind Shakya; Laura Jean Pierce; Hongfang Wang; Vincent Nganga; Patrick C Swanson; James M May; Dean Tantin; Gerald J Spangrude
Journal:  Antioxid Redox Signal       Date:  2013-02-05       Impact factor: 8.401

7.  Metal and substrate binding to an Fe(II) dioxygenase resolved by UV spectroscopy with global regression analysis.

Authors:  Piotr K Grzyska; Robert P Hausinger; Denis A Proshlyakov
Journal:  Anal Biochem       Date:  2009-11-20       Impact factor: 3.365

8.  Trypanosoma brucei brucei: thymine 7-hydroxylase-like proteins.

Authors:  Jana M Simmons; Donna J Koslowsky; Robert P Hausinger
Journal:  Exp Parasitol       Date:  2009-11-27       Impact factor: 2.011

9.  Iron(IV)hydroxide pK(a) and the role of thiolate ligation in C-H bond activation by cytochrome P450.

Authors:  Timothy H Yosca; Jonathan Rittle; Courtney M Krest; Elizabeth L Onderko; Alexey Silakov; Julio C Calixto; Rachel K Behan; Michael T Green
Journal:  Science       Date:  2013-11-15       Impact factor: 47.728

Review 10.  Role of Base Excision "Repair" Enzymes in Erasing Epigenetic Marks from DNA.

Authors:  Alexander C Drohat; Christopher T Coey
Journal:  Chem Rev       Date:  2016-08-08       Impact factor: 60.622

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