Circular dichroism spectroscopy analysis of conformational
transitions of a 54 base pair DNA duplex composed of
alternating CGCGCG and TATATA blocks.

J 1999

Circular dichroism spectroscopy analysis of conformational transitions of a 54 base pair DNA duplex composed of alternating CGCGCG and TATATA blocks.

KYPR, Jaroslav; Jiří ŠTĚPÁN; Jana CHLÁDKOVÁ and Michaela VORLÍČKOVÁ

Basic information

Original name

Circular dichroism spectroscopy analysis of conformational transitions of a 54 base pair DNA duplex composed of alternating CGCGCG and TATATA blocks.

Authors

KYPR, Jaroslav; Jiří ŠTĚPÁN; Jana CHLÁDKOVÁ and Michaela VORLÍČKOVÁ

Edition

Biospectroscopy, USA, New York, NY : John Wiley & Sons, Inc. 1999, 1075-4261

Other information

Type of outcome

Article in a journal

Confidentiality degree

is not subject to a state or trade secret

References:

URL

Impact factor

Impact factor: 1.477

Organization unit

Faculty of Science

Keywords in English

circular dichroism spectroscopy; DNA; multiple conformations; conformational transitions

Abstract

In the original language

CD spectroscopy was used to analyze conformational properties of a self-complementary 54-mer DNA composed of alternating (CG)3 and (TA)3 hexamers. NaCl induced the Z-form in poly(GC), but the 54-mer remained the B-form under the same conditions. The B-Z transition was induced only after the addition of NiCl2. However, the Z-form was adopted by the whole molecule, not by the (CG)3 blocks alone. Two orders of magnitude higher concentrations of NiCl2 were required to induce the Z-form in poly(AT). The Z-form was also induced in poly(GC) by CsF that switched poly(AT) into the X-form, which seems to be a solution counterpart of D-DNA. Under these conditions the CD spectrum of the 54-mer was consistent with the (TA)3 blocks being in the X-form and the (CG)3 blocks in the B-form. At high concentrations of ethanol or trifluoroethanol, poly(AT) was an A-form, while poly(GC) adopted either Z-form, A-form or Z-form. At the high trifluoroethanol concentrations the 54-mer cooperatively switched into a conformation whose CD spectrum was most consistent with the A-form in the (TA)3 blocks and the Z-form in the (CG)3 blocks. This suggests that the base pairs are tilted in the Z-form as in the A-form. The present article illustrates that CD spectroscopy can provide interesting pieces of information about conformational isomerizations and coexistence of multiple conformations in DNA molecules containing blocks of different simple sequence repeats. Š 1999 John Wiley & Sons, Inc. Biospectroscopy 5: 253-262, 1999

Cite

KYPR, Jaroslav; Jiří ŠTĚPÁN; Jana CHLÁDKOVÁ and Michaela VORLÍČKOVÁ. Circular dichroism spectroscopy analysis of conformational transitions of a 54 base pair DNA duplex composed of alternating CGCGCG and TATATA blocks. Biospectroscopy. USA: New York, NY : John Wiley & Sons, Inc., 1999, vol. 5, No 4, p. 253-262. ISSN 1075-4261.

@article{575650,
   author = {Kypr, Jaroslav and Štěpán, Jiří and Chládková, Jana and Vorlíčková, Michaela},
   article_location = {USA},
   article_number = {4},
   keywords = {circular dichroism spectroscopy; DNA; multiple conformations; conformational transitions},
   issn = {1075-4261},
   journal = {Biospectroscopy},
   title = {Circular dichroism spectroscopy analysis of conformational transitions of a 54 base pair DNA duplex composed of alternating CGCGCG and TATATA blocks.},
   url = {http://www3.interscience.wiley.com/cgi-bin/fulltext/62502650/PDFSTART},
   volume = {5},
   year = {1999}
}

TY  - JOUR
ID  - 575650
AU  - Kypr, Jaroslav - Štěpán, Jiří - Chládková, Jana - Vorlíčková, Michaela
PY  - 1999
TI  - Circular dichroism spectroscopy analysis of conformational transitions of a 54 base pair DNA duplex composed of alternating CGCGCG and TATATA blocks.
JF  - Biospectroscopy
VL  - 5
IS  - 4
SP  - 253-262
EP  - 253-262
PB  - New York, NY : John Wiley & Sons, Inc.
SN  - 10754261
KW  - circular dichroism spectroscopy
KW  - DNA
KW  - multiple conformations
KW  - conformational transitions
UR  - http://www3.interscience.wiley.com/cgi-bin/fulltext/62502650/PDFSTART
N2  - CD spectroscopy was used to analyze conformational properties of a self-complementary 54-mer DNA composed of alternating (CG)3 and (TA)3 hexamers. NaCl induced the Z-form in poly(GC), but the 54-mer remained the B-form under the same conditions. The B-Z transition was induced only after the addition of NiCl2. However, the Z-form was adopted by the whole molecule, not by the (CG)3 blocks alone. Two orders of magnitude higher concentrations of NiCl2 were required to induce the Z-form in poly(AT). The Z-form was also induced in poly(GC) by CsF that switched poly(AT) into the X-form, which seems to be a solution counterpart of D-DNA. Under these conditions the CD spectrum of the 54-mer was consistent with the (TA)3 blocks being in the X-form and the (CG)3 blocks in the B-form. At high concentrations of ethanol or trifluoroethanol, poly(AT) was an A-form, while poly(GC) adopted either Z-form, A-form or Z-form. At the high trifluoroethanol concentrations the 54-mer cooperatively switched into a conformation whose CD spectrum was most consistent with the A-form in the (TA)3 blocks and the Z-form in the (CG)3 blocks. This suggests that the base pairs are tilted in the Z-form as in the A-form. The present article illustrates that CD spectroscopy can provide interesting pieces of information about conformational isomerizations and coexistence of multiple conformations in DNA molecules containing blocks of different simple sequence repeats. Š 1999 John Wiley & Sons, Inc. Biospectroscopy 5: 253-262, 1999
ER  -

KYPR, Jaroslav; Jiří ŠTĚPÁN; Jana CHLÁDKOVÁ and Michaela VORLÍČKOVÁ. Circular dichroism spectroscopy analysis of conformational transitions of a 54 base pair DNA duplex composed of alternating CGCGCG and TATATA blocks. \textit{Biospectroscopy}. USA: New York, NY : John Wiley \&{} Sons, Inc., 1999, vol.~5, No~4, p.~253-262. ISSN~1075-4261.

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