Literature DB >> 23048026

Carbon-oxygen hydrogen bonding in biological structure and function.

Scott Horowitz1, Raymond C Trievel.   

Abstract

Carbon-oxygen (CH···O) hydrogen bonding represents an unusual category of molecular interactions first documented in biological structures over 4 decades ago. Although CH···O hydrogen bonding has remained generally underappreciated in the biochemical literature, studies over the last 15 years have begun to yield direct evidence of these interactions in biological systems. In this minireview, we provide a historical context of biological CH···O hydrogen bonding and summarize some major advancements from experimental studies over the past several years that have elucidated the importance, prevalence, and functions of these interactions. In particular, we examine the impact of CH···O bonds on protein and nucleic acid structure, molecular recognition, and enzyme catalysis and conclude by exploring overarching themes and unresolved questions regarding unconventional interactions in biomolecular structure.

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Year:  2012        PMID: 23048026      PMCID: PMC3516709          DOI: 10.1074/jbc.R112.418574

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  61 in total

1.  The Calpha ---H...O hydrogen bond: a determinant of stability and specificity in transmembrane helix interactions.

Authors:  A Senes; I Ubarretxena-Belandia; D M Engelman
Journal:  Proc Natl Acad Sci U S A       Date:  2001-07-31       Impact factor: 11.205

2.  Inter-strand C-H...O hydrogen bonds stabilizing four-stranded intercalated molecules: stereoelectronic effects of O4' in cytosine-rich DNA.

Authors:  I Berger; M Egli; A Rich
Journal:  Proc Natl Acad Sci U S A       Date:  1996-10-29       Impact factor: 11.205

3.  SET7/9 catalytic mutants reveal the role of active site water molecules in lysine multiple methylation.

Authors:  Paul A Del Rizzo; Jean-François Couture; Lynnette M A Dirk; Bethany S Strunk; Marijo S Roiko; Joseph S Brunzelle; Robert L Houtz; Raymond C Trievel
Journal:  J Biol Chem       Date:  2010-08-01       Impact factor: 5.157

4.  Rebek imides and their adenine complexes: preferences for Hoogsteen binding in the solid state and in solution.

Authors:  Ronald K Castellano; Volker Gramlich; François Diederich
Journal:  Chemistry       Date:  2002-01-04       Impact factor: 5.236

5.  Molecular structure of polyglycine II.

Authors:  G N Ramachandran; V Sasisekharan; C Ramakrishnan
Journal:  Biochim Biophys Acta       Date:  1966-01-04

6.  Direct evidence for methyl group coordination by carbon-oxygen hydrogen bonds in the lysine methyltransferase SET7/9.

Authors:  Scott Horowitz; Joseph D Yesselman; Hashim M Al-Hashimi; Raymond C Trievel
Journal:  J Biol Chem       Date:  2011-03-18       Impact factor: 5.157

7.  (His)C epsilon-H...O=C < hydrogen bond in the active sites of serine hydrolases.

Authors:  Z S Derewenda; U Derewenda; P M Kobos
Journal:  J Mol Biol       Date:  1994-08-05       Impact factor: 5.469

8.  Modest stabilization by most hydrogen-bonded side-chain interactions in membrane proteins.

Authors:  Nathan Hyunjoong Joh; Andrew Min; Salem Faham; Julian P Whitelegge; Duan Yang; Virgil L Woods; James U Bowie
Journal:  Nature       Date:  2008-05-25       Impact factor: 49.962

9.  Hyperfine-shifted 13C resonance assignments in an iron-sulfur protein with quantum chemical verification: aliphatic C-H···S 3-center-4-electron interactions.

Authors:  William M Westler; I-Jin Lin; András Perczel; Frank Weinhold; John L Markley
Journal:  J Am Chem Soc       Date:  2011-01-05       Impact factor: 15.419

10.  A selective jumonji H3K27 demethylase inhibitor modulates the proinflammatory macrophage response.

Authors:  Laurens Kruidenier; Chun-wa Chung; Zhongjun Cheng; John Liddle; KaHing Che; Gerard Joberty; Marcus Bantscheff; Chas Bountra; Angela Bridges; Hawa Diallo; Dirk Eberhard; Sue Hutchinson; Emma Jones; Roy Katso; Melanie Leveridge; Palwinder K Mander; Julie Mosley; Cesar Ramirez-Molina; Paul Rowland; Christopher J Schofield; Robert J Sheppard; Julia E Smith; Catherine Swales; Robert Tanner; Pamela Thomas; Anthony Tumber; Gerard Drewes; Udo Oppermann; Dinshaw J Patel; Kevin Lee; David M Wilson
Journal:  Nature       Date:  2012-08-16       Impact factor: 49.962

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  75 in total

1.  Structure-Based Engineering of Irreversible Inhibitors against Histone Lysine Demethylase KDM5A.

Authors:  John R Horton; Clayton B Woodcock; Qin Chen; Xu Liu; Xing Zhang; John Shanks; Ganesha Rai; Bryan T Mott; Daniel J Jansen; Stephen C Kales; Mark J Henderson; Matthew Cyr; Katherine Pohida; Xin Hu; Pranav Shah; Xin Xu; Ajit Jadhav; David J Maloney; Matthew D Hall; Anton Simeonov; Haian Fu; Paula M Vertino; Xiaodong Cheng
Journal:  J Med Chem       Date:  2018-11-15       Impact factor: 7.446

2.  Comparative Monomethylarginine Proteomics Suggests that Protein Arginine Methyltransferase 1 (PRMT1) is a Significant Contributor to Arginine Monomethylation in Toxoplasma gondii.

Authors:  Rama R Yakubu; Natalie C Silmon de Monerri; Edward Nieves; Kami Kim; Louis M Weiss
Journal:  Mol Cell Proteomics       Date:  2017-01-31       Impact factor: 5.911

3.  A frequent, GxxxG-mediated, transmembrane association motif is optimized for the formation of interhelical Cα-H hydrogen bonds.

Authors:  Benjamin K Mueller; Sabareesh Subramaniam; Alessandro Senes
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-25       Impact factor: 11.205

4.  The interaction strengths and spectroscopy parameters of the C2H2∙∙∙HX and HCN∙∙∙HX complexes (X = F, Cl, CN, and CCH) and related ternary systems valued by fluxes of charge densities: QTAIM, CCFO, and NBO calculations.

Authors:  Marco A A Viana; Regiane C M U Araújo; José A Maia Neto; Henrique C Chame; Arquimedes M Pereira; Boaz G Oliveira
Journal:  J Mol Model       Date:  2017-03-11       Impact factor: 1.810

5.  Identification of Quinoline-Based RIP2 Kinase Inhibitors with an Improved Therapeutic Index to the hERG Ion Channel.

Authors:  Pamela A Haile; Linda N Casillas; Michael J Bury; John F Mehlmann; Robert Singhaus; Adam K Charnley; Terry V Hughes; Michael P DeMartino; Gren Z Wang; Joseph J Romano; Xiaoyang Dong; Nikolay V Plotnikov; Ami S Lakdawala; Maire A Convery; Bartholomew J Votta; David B Lipshutz; Biva M Desai; Barbara Swift; Carol A Capriotti; Scott B Berger; Mukesh K Mahajan; Michael A Reilly; Elizabeth J Rivera; Helen H Sun; Rakesh Nagilla; Carol LePage; Michael T Ouellette; Rachel D Totoritis; Brian T Donovan; Barry S Brown; Khuram W Chaudhary; Peter J Gough; John Bertin; Robert W Marquis
Journal:  ACS Med Chem Lett       Date:  2018-09-26       Impact factor: 4.345

6.  High-Resolution 17O NMR Spectroscopy of Structural Water.

Authors:  Eric G Keeler; Vladimir K Michaelis; Christopher B Wilson; Ivan Hung; Xiaoling Wang; Zhehong Gan; Robert G Griffin
Journal:  J Phys Chem B       Date:  2019-04-01       Impact factor: 2.991

7.  DNA Conformation Induces Adaptable Binding by Tandem Zinc Finger Proteins.

Authors:  Anamika Patel; Peng Yang; Matthew Tinkham; Mihika Pradhan; Ming-An Sun; Yixuan Wang; Don Hoang; Gernot Wolf; John R Horton; Xing Zhang; Todd Macfarlan; Xiaodong Cheng
Journal:  Cell       Date:  2018-03-15       Impact factor: 41.582

8.  CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.

Authors:  Evgenia N Nikolova; Robyn L Stanfield; H Jane Dyson; Peter E Wright
Journal:  Biochemistry       Date:  2018-03-26       Impact factor: 3.162

Review 9.  Protein methylation at the surface and buried deep: thinking outside the histone box.

Authors:  Steven G Clarke
Journal:  Trends Biochem Sci       Date:  2013-03-13       Impact factor: 13.807

10.  Structural insights into methylated DNA recognition by the C-terminal zinc fingers of the DNA reader protein ZBTB38.

Authors:  Nicholas O Hudson; Frank G Whitby; Bethany A Buck-Koehntop
Journal:  J Biol Chem       Date:  2018-10-24       Impact factor: 5.157

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