Literature DB >> 16838985

Calculation of vibrational spectra of linear tetrapyrroles. 3. Hydrogen-bonded hexamethylpyrromethene dimers.

Maria-Andrea Mroginski1, Karoly Németh, Tanja Bauschlicher, Werner Klotzbücher, Richard Goddard, Oliver Heinemann, Peter Hildebrandt, Franz Mark.   

Abstract

The structure and vibrational spectra of hexamethylpyrromethene (HMPM) have been investigated by X-ray crystallography, IR and Raman spectroscopies, and density functional theory calculations. HMPM crystallizes in the form of dimers, which are held together by bifurcated N-H(...N)(2) hydrogen bonds, involving one intramolecular and one intermolecular N-H...N interaction. The monomers are essentially planar, and the mean planes of the monomers lie approximately perpendicular to one another, so that the four N atoms in the dimer form a distorted tetrahedron. The structure of the HMPM dimer is well-reproduced by B3LYP/6-31G calculations. A comparison of the calculated geometry of the dimer with that of the monomer reveals only small changes in the N-H...N entity and the methine bridge angles upon dimerization. These are a result of weakening of the intramolecular N-H...N hydrogen bond and the formation of a more linear N-H...N intermolecular hydrogen bond. Using an empirical relation between the shift of the N-H stretching frequency of pyrrole and the enthalpy of adduct formation with bases [Nozari, M. S.; Drago, R. S. J. Am. Chem. Soc. 1970, 92, 7086-7090], estimates of the strength of the intra- and intermolecular hydrogen bonds are obtained. IR and Raman spectroscopies of HMPM and its isotopomers deuterated at the pyrrolic nitrogen atom and at the methine bridge reveal that the molecule is monomeric in nonpolar organic solvents but dimeric in a solid Ar matrix and in KBr pellets. The matrix IR spectra show a splitting of vibrational modes for the dimer, particularly those involving the N-H coordinates. Due to intrinsic deficiencies of the B3LYP/6-31G approximation, a satisfactory reproduction of these modes of the monomeric and dimeric HMPM requires specific adjustments of the NH scaling factors for the calculated force constants and, in the case of the NH out-of-plane modes of HMPM dimers, also of intra- and intermolecular coupling constants. This parametrization does not significantly affect the other calculated modes, which in general reveal a very good agreement with the experimental data.

Entities:  

Year:  2005        PMID: 16838985     DOI: 10.1021/jp045805y

Source DB:  PubMed          Journal:  J Phys Chem A        ISSN: 1089-5639            Impact factor:   2.781


  5 in total

1.  The chromophore structures of the Pr States in plant and bacterial phytochromes.

Authors:  Daniel H Murgida; David von Stetten; Peter Hildebrandt; Pascale Schwinté; Friedrich Siebert; Shivani Sharda; Wolfgang Gärtner; Maria Andrea Mroginski
Journal:  Biophys J       Date:  2007-06-01       Impact factor: 4.033

2.  Quantum mechanics/molecular mechanics calculation of the Raman spectra of the phycocyanobilin chromophore in alpha-C-phycocyanin.

Authors:  Maria Andrea Mroginski; Franz Mark; Walter Thiel; Peter Hildebrandt
Journal:  Biophys J       Date:  2007-05-18       Impact factor: 4.033

3.  Chromophore structure of cyanobacterial phytochrome Cph1 in the Pr state: reconciling structural and spectroscopic data by QM/MM calculations.

Authors:  Maria Andrea Mroginski; David von Stetten; Francisco Velazquez Escobar; Holger M Strauss; Steve Kaminski; Patrick Scheerer; Mina Günther; Daniel H Murgida; Peter Schmieder; Christian Bongards; Wolfgang Gärtner; Jo Mailliet; Jon Hughes; Lars-Oliver Essen; Peter Hildebrandt
Journal:  Biophys J       Date:  2009-05-20       Impact factor: 4.033

4.  Bis[2,3,4-trimethyl-5-[(3,4,5-trimethyl-2H-pyrrol-2-yl-idene-κN)meth-yl]-1H-pyrrolato-κN]copper(II).

Authors:  Sultan S Erdem; Frank R Fronczek; Steven F Watkins
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-10-06

5.  NH Stretching Frequencies of Intramolecularly Hydrogen-Bonded Systems: An Experimental and Theoretical Study.

Authors:  Poul Erik Hansen; Mohammad Vakili; Fadhil S Kamounah; Jens Spanget-Larsen
Journal:  Molecules       Date:  2021-12-17       Impact factor: 4.411

  5 in total

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