Conformational transitions of synthetic DNA sequences with inserted bases, related to the dodecamer d(CGCGAATTCGCG).
Identifieur interne : 002845 ( Ncbi/Curation ); précédent : 002844; suivant : 002846Conformational transitions of synthetic DNA sequences with inserted bases, related to the dodecamer d(CGCGAATTCGCG).
Auteurs : M. Miller ; W. Kirchhoff ; F. Schwarz ; E. Appella ; Y Y Chiu ; J S Cohen ; J L SussmanSource :
- Nucleic acids research [ 0305-1048 ] ; 1987.
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Abstract
Conformational transitions for a series of imperfect palindromes related to the dodecamer d(CGCGAATTCGCG) have been investigated. These sequences are: two isomeric 13-mers - d(CGCAGAATTCGCG) (13-merI) and d(CGCGAATTACGCG) (13-merII), 17-mer d(CGCGCGAATTACGCGCG) and 15-mer d(CGCGAAATTTACGCG). Insertion of a single adenine nucleotide prevents these sequences from being self-complementary. Analysis of thermodynamic parameters derived from the melting profiles together with other data at higher concentrations (NMR and calorimetry) indicates that the insertion of the additional nucleotide which lacks a complement in the opposite strand does not change the enthalpy of the duplex formation, but does alter the number of stable nucleation configurations. The relative position of the insertion within the self-complementary sequence determines the equilibrium between the duplex form and the single-stranded hairpin loop. C-G segments separated by the insertion from the rest of the molecule can undergo an independent conformational transition at high salt concentration, probably to the Z form.
DOI: 10.1093/nar/15.9.3877
PubMed: 3588311
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pubmed:3588311Le document en format XML
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Appella</name></author><author><name sortKey="Chiu, Y Y" sort="Chiu, Y Y" uniqKey="Chiu Y" first="Y Y" last="Chiu">Y Y Chiu</name></author><author><name sortKey="Cohen, J S" sort="Cohen, J S" uniqKey="Cohen J" first="J S" last="Cohen">J S Cohen</name></author><author><name sortKey="Sussman, J L" sort="Sussman, J L" uniqKey="Sussman J" first="J L" last="Sussman">J L Sussman</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="1987">1987</date><idno type="RBID">pubmed:3588311</idno><idno type="pmid">3588311</idno><idno type="doi">10.1093/nar/15.9.3877</idno><idno type="wicri:Area/PubMed/Corpus">002A75</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002A75</idno><idno type="wicri:Area/PubMed/Curation">002A75</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002A75</idno><idno type="wicri:Area/PubMed/Checkpoint">002914</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002914</idno><idno type="wicri:Area/Ncbi/Merge">002845</idno><idno type="wicri:Area/Ncbi/Curation">002845</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Conformational transitions of synthetic DNA sequences with inserted bases, related to the dodecamer d(CGCGAATTCGCG).</title><author><name sortKey="Miller, M" sort="Miller, M" uniqKey="Miller M" first="M" last="Miller">M. Miller</name></author><author><name sortKey="Kirchhoff, W" sort="Kirchhoff, W" uniqKey="Kirchhoff W" first="W" last="Kirchhoff">W. Kirchhoff</name></author><author><name sortKey="Schwarz, F" sort="Schwarz, F" uniqKey="Schwarz F" first="F" last="Schwarz">F. Schwarz</name></author><author><name sortKey="Appella, E" sort="Appella, E" uniqKey="Appella E" first="E" last="Appella">E. Appella</name></author><author><name sortKey="Chiu, Y Y" sort="Chiu, Y Y" uniqKey="Chiu Y" first="Y Y" last="Chiu">Y Y Chiu</name></author><author><name sortKey="Cohen, J S" sort="Cohen, J S" uniqKey="Cohen J" first="J S" last="Cohen">J S Cohen</name></author><author><name sortKey="Sussman, J L" sort="Sussman, J L" uniqKey="Sussman J" first="J L" last="Sussman">J L Sussman</name></author></analytic><series><title level="j">Nucleic acids research</title><idno type="ISSN">0305-1048</idno><imprint><date when="1987" type="published">1987</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Sequence</term><term>DNA</term><term>Nucleic Acid Conformation</term><term>Nucleic Acid Denaturation</term><term>Oligodeoxyribonucleotides</term><term>Thermodynamics</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN</term><term>Conformation d'acide nucléique</term><term>Dénaturation d'acide nucléique</term><term>Oligodésoxyribonucléotides</term><term>Séquence nucléotidique</term><term>Thermodynamique</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>DNA</term><term>Oligodeoxyribonucleotides</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term><term>Nucleic Acid Conformation</term><term>Nucleic Acid Denaturation</term><term>Thermodynamics</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>ADN</term><term>Conformation d'acide nucléique</term><term>Dénaturation d'acide nucléique</term><term>Oligodésoxyribonucléotides</term><term>Séquence nucléotidique</term><term>Thermodynamique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Conformational transitions for a series of imperfect palindromes related to the dodecamer d(CGCGAATTCGCG) have been investigated. These sequences are: two isomeric 13-mers - d(CGCAGAATTCGCG) (13-merI) and d(CGCGAATTACGCG) (13-merII), 17-mer d(CGCGCGAATTACGCGCG) and 15-mer d(CGCGAAATTTACGCG). Insertion of a single adenine nucleotide prevents these sequences from being self-complementary. Analysis of thermodynamic parameters derived from the melting profiles together with other data at higher concentrations (NMR and calorimetry) indicates that the insertion of the additional nucleotide which lacks a complement in the opposite strand does not change the enthalpy of the duplex formation, but does alter the number of stable nucleation configurations. The relative position of the insertion within the self-complementary sequence determines the equilibrium between the duplex form and the single-stranded hairpin loop. C-G segments separated by the insertion from the rest of the molecule can undergo an independent conformational transition at high salt concentration, probably to the Z form.</div></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
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