Literature DB >> 19082643

Expansion of the sigma-hole concept.

Jane S Murray1, Pat Lane, Peter Politzer.   

Abstract

The term "sigma-hole" originally referred to the electron-deficient outer lobe of a half-filled p (or nearly p) orbital involved in forming a covalent bond. If the electron deficiency is sufficient, there can result a region of positive electrostatic potential which can interact attractively (noncovalently) with negative sites on other molecules (sigma-hole bonding). The interaction is highly directional, along the extension of the covalent bond giving rise to the sigma-hole. Sigma-hole bonding has been observed, experimentally and computationally, for many covalently-bonded atoms of Groups V-VII. The positive character of the sigma-hole increases in going from the lighter to the heavier (more polarizable) atoms within a Group, and as the remainder of the molecule becomes more electron-withdrawing. In this paper, we show computationally that significantly positive sigma-holes, and subsequent noncovalent interactions, can also occur for atoms of Group IV. This observation, together with analogous ones for the molecules (H3C)2SO, (H3C)2SO2 and Cl3PO, demonstrates a need to expand the interpretation of the origins of sigma-holes: (1) While the bonding orbital does require considerable p character, in view of the well-established highly directional nature of sigma-hole bonding, a sizeable s contribution is not precluded. (2) It is possible for the bonding orbital to be doubly-occupied and forming a coordinate covalent bond.

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Year:  2008        PMID: 19082643     DOI: 10.1007/s00894-008-0386-9

Source DB:  PubMed          Journal:  J Mol Model        ISSN: 0948-5023            Impact factor:   1.810


  9 in total

1.  Semiempirical GGA-type density functional constructed with a long-range dispersion correction.

Authors:  Stefan Grimme
Journal:  J Comput Chem       Date:  2006-11-30       Impact factor: 3.376

2.  Sigma-hole bonding: molecules containing group VI atoms.

Authors:  Jane S Murray; Pat Lane; Timothy Clark; Peter Politzer
Journal:  J Mol Model       Date:  2007-07-24       Impact factor: 1.810

3.  Sigma-hole bonding between like atoms; a fallacy of atomic charges.

Authors:  Peter Politzer; Jane S Murray; Monica C Concha
Journal:  J Mol Model       Date:  2008-03-04       Impact factor: 1.810

4.  An overview of halogen bonding.

Authors:  Peter Politzer; Pat Lane; Monica C Concha; Yuguang Ma; Jane S Murray
Journal:  J Mol Model       Date:  2006-09-30       Impact factor: 1.810

5.  Halogen bonding: the sigma-hole. Proceedings of "Modeling interactions in biomolecules II", Prague, September 5th-9th, 2005.

Authors:  Timothy Clark; Matthias Hennemann; Jane S Murray; Peter Politzer
Journal:  J Mol Model       Date:  2006-08-23       Impact factor: 1.810

6.  Halogen bonding based recognition processes: a world parallel to hydrogen bonding.

Authors:  Pierangelo Metrangolo; Hannes Neukirch; Tullio Pilati; Giuseppe Resnati
Journal:  Acc Chem Res       Date:  2005-05       Impact factor: 22.384

7.  Halogen bonds in biological molecules.

Authors:  Pascal Auffinger; Franklin A Hays; Eric Westhof; P Shing Ho
Journal:  Proc Natl Acad Sci U S A       Date:  2004-11-19       Impact factor: 11.205

8.  Why are dimethyl sulfoxide and dimethyl sulfone such good solvents?

Authors:  Timothy Clark; Jane S Murray; Pat Lane; Peter Politzer
Journal:  J Mol Model       Date:  2008-05-06       Impact factor: 1.810

9.  Halogen bonding and the design of new materials: organic bromides, chlorides and perhaps even fluorides as donors.

Authors:  Peter Politzer; Jane S Murray; Monica C Concha
Journal:  J Mol Model       Date:  2007-03-15       Impact factor: 1.810

  9 in total
  100 in total

1.  Polarization-induced σ-holes and hydrogen bonding.

Authors:  Matthias Hennemann; Jane S Murray; Peter Politzer; Kevin E Riley; Timothy Clark
Journal:  J Mol Model       Date:  2011-10-21       Impact factor: 1.810

2.  Anion recognition based on halogen bonding: a case study of macrocyclic imidazoliophane receptors.

Authors:  Yunxiang Lu; Haiying Li; Xiang Zhu; Honglai Liu; Weiliang Zhu
Journal:  J Mol Model       Date:  2012-01-18       Impact factor: 1.810

3.  Quantitative analysis of molecular surfaces: areas, volumes, electrostatic potentials and average local ionization energies.

Authors:  Felipe A Bulat; Alejandro Toro-Labbé; Tore Brinck; Jane S Murray; Peter Politzer
Journal:  J Mol Model       Date:  2010-04-02       Impact factor: 1.810

4.  Theoretical investigations of the H···π and X (X = F, Cl, Br, I)···π complexes between hypohalous acids and benzene.

Authors:  Qiang Zhao; Dacheng Feng; Youmin Sun; Jingcheng Hao; Zhengting Cai
Journal:  J Mol Model       Date:  2010-12-01       Impact factor: 1.810

5.  Non-covalent interactions - QTAIM and NBO analysis.

Authors:  Sławomir J Grabowski
Journal:  J Mol Model       Date:  2012-07-08       Impact factor: 1.810

6.  Topological insights into the 1/1 diacetyl/water complex gained using a new methodological approach.

Authors:  D Dargent; E L Zins; B Madebène; M E Alikhani
Journal:  J Mol Model       Date:  2015-07-30       Impact factor: 1.810

7.  Cooperative effects between halogen bonds and pnicogen bonds in XBr∙∙∙OFH2P∙∙∙NH3 (X = F, Cl, CN, NC, OH, and NO2) complexes.

Authors:  Qiang Zhao
Journal:  J Mol Model       Date:  2015-12-09       Impact factor: 1.810

8.  Theoretical study of the cooperative effects between the triel bond and the pnicogen bond in BF3···NCXH2···Y (X = P, As, Sb; Y = H2O, NH3) complexes.

Authors:  Ming-Xiu Liu; Hong-Ying Zhuo; Qing-Zhong Li; Wen-Zuo Li; Jian-Bo Cheng
Journal:  J Mol Model       Date:  2015-12-16       Impact factor: 1.810

9.  Discovery of σ-hole interactions involving ylides.

Authors:  Jiannan Ji; Yanli Zeng; Xueying Zhang; Shijun Zheng; Lingpeng Meng
Journal:  J Mol Model       Date:  2013-09-17       Impact factor: 1.810

10.  Absolute binding free energies for octa-acids and guests in SAMPL5 : Evaluating binding free energies for octa-acid and guest complexes in the SAMPL5 blind challenge.

Authors:  Florentina Tofoleanu; Juyong Lee; Frank C Pickard Iv; Gerhard König; Jing Huang; Minkyung Baek; Chaok Seok; Bernard R Brooks
Journal:  J Comput Aided Mol Des       Date:  2016-09-30       Impact factor: 3.686

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