Classification of CD and absorption spectra in the Soret band of H2TMPyP bound to various synthetic polynucleotides

Soomin Lee, Sun Hee Jeon, Bok Jo Kim, Sung Wook Han, Ho Gyeom Jang, Seog K. Kim

Research output: Contribution to journalArticle

73 Citations (Scopus)

Abstract

The binding mode of porphyrins, namely meso-tetrakis(N-methyl pyridinium-4-yl)porphyrin (H2TMPyP), was classified in this work by absorption and circular dichroism(CD) spectroscopy. The three binding modes of intercalation, minor groove binding and external stacking exhibit their own characteristic absorption and CD spectra. Intercalation occurs for this porphyrin when bound to GC-rich polynucleotides at a low mixing ratio, as expected. This binding mode produces hypochromism and a red shift in the absorption band and a negative CD band in the Soret absorption region. When it is complexed with AT-rich polynucleotides at a low mixing ratio, hypochromism and a red shift in the absorption band and a positive CD peak is apparent, and this species can easily be assigned to the minor groove-binding mode. For both AT- and GC-rich polynucleotides at a high binding ratio, an excitonic CD was apparent. The sign of excitonic CD depends on the order of the DNA bases; the CD spectra of H2TMPyP complexed with non-alternating homopolymer (disregarding the nature of base pairs, i.e. AT or GC) are characterized by a positive band at short wavelengths followed by a negative band at long wavelengths. In contrast, those complexed with alternating polynucleotide were opposite to those of non-alternating homopolymers.

Original languageEnglish
Pages (from-to)35-45
Number of pages11
JournalBiophysical Chemistry
Volume92
Issue number1-2
DOIs
Publication statusPublished - 2001 Sep 30

Fingerprint

polynucleotides
Polynucleotides
Dichroism
Circular Dichroism
dichroism
Absorption spectra
absorption spectra
Porphyrins
porphyrins
Intercalation
Homopolymerization
mixing ratios
intercalation
red shift
grooves
Circular dichroism spectroscopy
Wavelength
Base Pairing
wavelengths
Spectrum Analysis

Keywords

  • Circular dichroism
  • DNA
  • Porphyrin
  • Synthetic polynucleotides

ASJC Scopus subject areas

  • Biochemistry
  • Physical and Theoretical Chemistry
  • Biophysics

Cite this

Classification of CD and absorption spectra in the Soret band of H2TMPyP bound to various synthetic polynucleotides. / Lee, Soomin; Jeon, Sun Hee; Kim, Bok Jo; Han, Sung Wook; Jang, Ho Gyeom; Kim, Seog K.

In: Biophysical Chemistry, Vol. 92, No. 1-2, 30.09.2001, p. 35-45.

Research output: Contribution to journalArticle

Lee, Soomin ; Jeon, Sun Hee ; Kim, Bok Jo ; Han, Sung Wook ; Jang, Ho Gyeom ; Kim, Seog K. / Classification of CD and absorption spectra in the Soret band of H2TMPyP bound to various synthetic polynucleotides. In: Biophysical Chemistry. 2001 ; Vol. 92, No. 1-2. pp. 35-45.
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