Literature DB >> 17647029

Sigma-hole bonding: molecules containing group VI atoms.

Jane S Murray1, Pat Lane, Timothy Clark, Peter Politzer.   

Abstract

It has been observed both experimentally and computationally that some divalently-bonded Group VI atoms interact in a noncovalent but highly directional manner with nucleophiles. We show that this can readily be explained in terms of regions of positive electrostatic potential on the outer surfaces of such atoms, these regions being located along the extensions of their existing covalent bonds. These positive regions can interact attractively with the lone pairs of nucleophiles. The existence of such a positive region is attributed to the presence of a "sigma-hole." This term designates the electron-deficient outer lobe of a half-filled p bonding orbital on the Group VI atom. The positive regions become stronger as the electronegativity of the atom decreases and its polarizability increases, and as the groups to which it is covalently bonded become more electron-withdrawing. We demonstrate computationally that the sigma-hole concept and the outer regions of positive electrostatic potential account for the existence, directionalities and strengths of the observed noncovalent interactions.

Entities:  

Mesh:

Substances:

Year:  2007        PMID: 17647029     DOI: 10.1007/s00894-007-0225-4

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


  8 in total

1.  Halogen Bonding versus Hydrogen Bonding in Driving Self-Assembly Processes Perfluorocarbon-hydrocarbon self-assembly, part IX. This work was supported by MURST (Cofinanziamento '99) and EU (COST-D12-0012). We thank Dr. A. Lunghi and Dr. P. Cardillo (Stazione Sperimentale Combustibili, S. Donato Milanese, Italy) for ARC experiments. Part VIII: ref. 9.

Authors: 
Journal:  Angew Chem Int Ed Engl       Date:  2000-05-15       Impact factor: 15.336

2.  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

3.  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

4.  Quantitative evaluation of weak nonbonded Se...F interactions and their remarkable nature as orbital interactions.

Authors:  Michio Iwaoka; Hiroto Komatsu; Takayuki Katsuda; Shuji Tomoda
Journal:  J Am Chem Soc       Date:  2002-03-06       Impact factor: 15.419

5.  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

6.  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

7.  The nature of the supramolecular association of 1,2,5-chalcogenadiazoles.

Authors:  Anthony F Cozzolino; Ignacio Vargas-Baca; Sarah Mansour; Amir H Mahmoudkhani
Journal:  J Am Chem Soc       Date:  2005-03-09       Impact factor: 15.419

8.  Theoretical investigations on chalcogen-chalcogen interactions: what makes these nonbonded interactions bonding?

Authors:  Christian Bleiholder; Daniel B Werz; Horst Köppel; Rolf Gleiter
Journal:  J Am Chem Soc       Date:  2006-03-01       Impact factor: 15.419

  8 in total
  69 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.  Hybridization-displaced charges for amino-acids: a new model using two point charges per atom along with bond-center charges.

Authors:  Neha Agnihotri; P C Mishra
Journal:  J Mol Model       Date:  2010-09-19       Impact factor: 1.810

3.  Mechanistic investigation of the base-promoted cycloselenoetherification of pent-4-en-1-ol.

Authors:  Marina D Rvovic; Vera M Divac; Ralph Puchta; Zorica M Bugarčić
Journal:  J Mol Model       Date:  2010-08-15       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.  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

7.  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

8.  Molecular modeling and dynamics studies of purine nucleoside phosphorylase from Bacteroides fragilis.

Authors:  Ivani Pauli; Luis Fernando Saraiva Macedo Timmers; Rafael Andrade Caceres; Luiz Augusto Basso; Diógenes Santiago Santos; Walter Filgueira de Azevedo
Journal:  J Mol Model       Date:  2009-01-27       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

Review 10.  Halogen bonding (X-bonding): a biological perspective.

Authors:  Matthew R Scholfield; Crystal M Vander Zanden; Megan Carter; P Shing Ho
Journal:  Protein Sci       Date:  2012-12-29       Impact factor: 6.725

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.