Literature DB >> 29678112

Hydrogen Bonds: Simple after All?

Daniel Herschlag, Margaux M Pinney.   

Abstract

Hydrogen bonds play integral roles in biological structure, function, and conformational dynamics and are fundamental to life as it has evolved on Earth. However, our understanding of these fundamental and ubiquitous interactions has seemed fractured and incomplete, and it has been difficult to extract generalities and principles about hydrogen bonds despite thousands of papers published on this topic, perhaps in part because of the expanse of this subject and the density of studies. Fortunately, recent hydrogen bond proposals, discussions, and debates have stimulated new tests and models and have led to a remarkably simple picture of the structure of hydrogen bonds. This knowledge also provides clarity concerning hydrogen bond energetics, limiting and simplifying the factors that need be considered. Herein we recount the advances that have led to this simpler view of hydrogen bond structure, dynamics, and energetics. A quantitative predictive model for hydrogen bond length can now be broadly and deeply applied to evaluate current proposals and to uncover structural features of proteins, their conformational restraints, and their correlated motions. In contrast, a quantitative energetic description of molecular recognition and catalysis by proteins remains an important ongoing challenge, although our improved understanding of hydrogen bonds may aid in testing predictions from current and future models. We close by codifying our current state of understanding into five "Rules for Hydrogen Bonding" that may provide a foundation for understanding and teaching about these vital interactions and for building toward a deeper understanding of hydrogen bond energetics.

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Year:  2018        PMID: 29678112     DOI: 10.1021/acs.biochem.8b00217

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


  17 in total

1.  Twelve 4-(4-meth-oxy-phen-yl)piperazin-1-ium salts containing organic anions: supra-molecular assembly in one, two and three dimensions.

Authors:  Haruvegowda Kiran Kumar; Hemmige S Yathirajan; Sabine Foro; Christopher Glidewell
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2019-09-20

2.  Evaluating the impact of X-ray damage on conformational heterogeneity in room-temperature (277 K) and cryo-cooled protein crystals.

Authors:  Filip Yabukarski; Tzanko Doukov; Daniel A Mokhtari; Siyuan Du; Daniel Herschlag
Journal:  Acta Crystallogr D Struct Biol       Date:  2022-07-14       Impact factor: 5.699

3.  An Unusual Aspartic Acid Cluster in the Reovirus Attachment Fiber σ1 Mediates Stability at Low pH and Preserves Trimeric Organization.

Authors:  Giulia Glorani; Max Ruwolt; Nicole Holton; Bernhard Loll; Ursula Neu
Journal:  J Virol       Date:  2022-04-05       Impact factor: 6.549

4.  Intramolecular N-H⋅⋅⋅F Hydrogen Bonding Interaction in a Series of 4-Anilino-5-Fluoroquinazolines: Experimental and Theoretical Characterization of Electronic and Conformational Effects.

Authors:  Lorenz M Urner; Ga Young Lee; Joseph W Treacy; Aneta Turlik; Saeed I Khan; K N Houk; Michael E Jung
Journal:  Chemistry       Date:  2021-12-04       Impact factor: 5.020

Review 5.  Low barrier hydrogen bonds in protein structure and function.

Authors:  M Trent Kemp; Eric M Lewandowski; Yu Chen
Journal:  Biochim Biophys Acta Proteins Proteom       Date:  2020-10-23       Impact factor: 3.036

Review 6.  On the Case of the Misplaced Hydrogens.

Authors:  Prashasti Kumar; Pratul K Agarwal; Matthew J Cuneo
Journal:  Chembiochem       Date:  2020-08-28       Impact factor: 3.164

7.  Assessment of enzyme active site positioning and tests of catalytic mechanisms through X-ray-derived conformational ensembles.

Authors:  Filip Yabukarski; Justin T Biel; Margaux M Pinney; Tzanko Doukov; Alexander S Powers; James S Fraser; Daniel Herschlag
Journal:  Proc Natl Acad Sci U S A       Date:  2020-12-21       Impact factor: 12.779

8.  Unveiling KuQuinone Redox Species: An Electrochemical and Computational Cross Study.

Authors:  Francesca Valentini; Federica Sabuzi; Valeria Conte; Victor N Nemykin; Pierluca Galloni
Journal:  J Org Chem       Date:  2021-04-07       Impact factor: 4.354

9.  Structural basis of DNA methylation-dependent site selectivity of the Epstein-Barr virus lytic switch protein ZEBRA/Zta/BZLF1.

Authors:  Florent Bernaudat; Montse Gustems; Johannes Günther; Mizar F Oliva; Alexander Buschle; Christine Göbel; Priscilla Pagniez; Julien Lupo; Luca Signor; Christoph W Müller; Patrice Morand; Michael Sattler; Wolfgang Hammerschmidt; Carlo Petosa
Journal:  Nucleic Acids Res       Date:  2022-01-11       Impact factor: 16.971

Review 10.  17O NMR Spectroscopy: A Novel Probe for Characterizing Protein Structure and Folding.

Authors:  Srinivasan Muniyappan; Yuxi Lin; Young-Ho Lee; Jin Hae Kim
Journal:  Biology (Basel)       Date:  2021-05-21
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