Literature DB >> 23543233

How are hydrogen bonds modified by metal binding?

Charlotte Husberg1, Ulf Ryde.   

Abstract

We have used density functional theory calculations to investigate how the hydrogen-bond strength is modified when a ligand is bound to a metal using over 60 model systems involving six metals and eight ligands frequently encountered in metalloproteins. We study how the hydrogen-bond geometry and energy vary with the nature of metal, the oxidation state, the coordination number, the ligand involved in the hydrogen bond, other first-sphere ligands, and different hydrogen-bond probe molecules. The results show that, in general, the hydrogen-bond strength is increased for neutral ligands and decreased for negatively charged ligands. The size of the effect is mainly determined by the net charge of the metal complex, and all effects are typically decreased when the model is solvated. In water solution, the hydrogen-bond strength can increase by up to 37 kJ/mol for neutral ligands, and that of negatively charged ligands can increase (for complexes with a negative net charge) or decrease (for positively charged complexes). If the net charge of the complex does not change, there is normally little difference between different metals or different types of complexes. The only exception is observed for sulphur-containing ligands (Met and Cys) and if the ligand is redox-active (e.g. high-valence Fe-O complexes).

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Year:  2013        PMID: 23543233     DOI: 10.1007/s00775-013-0996-2

Source DB:  PubMed          Journal:  J Biol Inorg Chem        ISSN: 0949-8257            Impact factor:   3.358


  39 in total

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Authors:  U Ryde; M H Olsson; B O Roos; J O De Kerpel; K Pierloot
Journal:  J Biol Inorg Chem       Date:  2000-10       Impact factor: 3.358

2.  Benchmarking density functional methods against the S66 and S66x8 datasets for non-covalent interactions.

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Journal:  Chemphyschem       Date:  2011-11-23       Impact factor: 3.102

3.  Specific ion effects on water structure and dynamics beyond the first hydration shell.

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Journal:  Angew Chem Int Ed Engl       Date:  2011-01-10       Impact factor: 15.336

4.  Assessment of the MP2 method, along with several basis sets, for the computation of interaction energies of biologically relevant hydrogen bonded and dispersion bound complexes.

Authors:  Kevin E Riley; Pavel Hobza
Journal:  J Phys Chem A       Date:  2007-07-25       Impact factor: 2.781

5.  C-H bond activation in heme proteins: the role of thiolate ligation in cytochrome P450.

Authors:  Michael T Green
Journal:  Curr Opin Chem Biol       Date:  2009-04-03       Impact factor: 8.822

Review 6.  P450 enzymes: their structure, reactivity, and selectivity-modeled by QM/MM calculations.

Authors:  Sason Shaik; Shimrit Cohen; Yong Wang; Hui Chen; Devesh Kumar; Walter Thiel
Journal:  Chem Rev       Date:  2010-02-10       Impact factor: 60.622

Review 7.  Heme enzyme crystal structures.

Authors:  T L Poulos
Journal:  Adv Inorg Biochem       Date:  1988

8.  The protonation status of compound II in myoglobin, studied by a combination of experimental data and quantum chemical calculations: quantum refinement.

Authors:  Kristina Nilsson; Hans-Petter Hersleth; Thomas H Rod; K Kristoffer Andersson; Ulf Ryde
Journal:  Biophys J       Date:  2004-08-31       Impact factor: 4.033

9.  On the role of the axial ligand in heme proteins: a theoretical study.

Authors:  Patrik Rydberg; Emma Sigfridsson; Ulf Ryde
Journal:  J Biol Inorg Chem       Date:  2004-01-15       Impact factor: 3.358

10.  Comparison of the chemical properties of iron and cobalt porphyrins and corrins.

Authors:  Kasper P Jensen; Ulf Ryde
Journal:  Chembiochem       Date:  2003-05-09       Impact factor: 3.164

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  1 in total

1.  The role of solvent exclusion in the interaction between D124 and the metal site in SOD1: implications for ALS.

Authors:  Raúl Mera-Adasme; Carl-Mikael Suomivuori; Angélica Fierro; Janne Pesonen; Dage Sundholm
Journal:  J Biol Inorg Chem       Date:  2013-09-13       Impact factor: 3.358

  1 in total

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