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==Orientational and dynamical heterogeneity of Rhodamine 6G terminally attached to a DNA helix== | |||
<StructureSection load='2v3l' size='340' side='right'caption='[[2v3l]], [[NMR_Ensembles_of_Models | 2 NMR models]]' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[2v3l]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2V3L FirstGlance]. <br> | |||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=R6G:RHODAMINE+6G'>R6G</scene></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2v3l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3l OCA], [https://pdbe.org/2v3l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2v3l RCSB], [https://www.ebi.ac.uk/pdbsum/2v3l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2v3l ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
The comparison of Forster resonance energy transfer (FRET) efficiencies between two fluorophores covalently attached to a single protein or DNA molecule is an elegant approach for deducing information about their structural and dynamical heterogeneity. For a more detailed structural interpretation of single-molecule FRET assays, information about the positions as well as the dynamics of the dye labels attached to the biomolecule is important. In this work, Rhodamine 6G (2-[3'-(ethylamino)-6'-(ethylimino)-2',7'-dimethyl-6'H-xanthen-9'-yl]-benz oic acid) bound to the 5'-end of a 20 base pair long DNA duplex is investigated by both single-molecule multiparameter fluorescence detection (MFD) experiments and NMR spectroscopy. Rhodamine 6G is commonly employed in nucleic acid research as a FRET dye. MFD experiments directly reveal the equilibrium of the dye bound to DNA between three heterogeneous environments, which are characterized by distinct fluorescence lifetime and intensity distributions as a result of different guanine-dye excited-state electron transfer interactions. Sub-ensemble fluorescence autocorrelation analysis shows the highly dynamic character of the dye-DNA interactions ranging from nano- to milliseconds and species-specific triplet relaxation times. Two-dimensional NMR spectroscopy corroborates this information by the determination of the detailed geometric structures of the dye-nucleobase complex and their assignment to each population observed in the single-molecule fluorescence experiments. From both methods, a consistent and detailed molecular description of the structural and dynamical heterogeneity is obtained. | |||
Orientational and dynamical heterogeneity of rhodamine 6G terminally attached to a DNA helix revealed by NMR and single-molecule fluorescence spectroscopy.,Neubauer H, Gaiko N, Berger S, Schaffer J, Eggeling C, Tuma J, Verdier L, Seidel CA, Griesinger C, Volkmer A J Am Chem Soc. 2007 Oct 24;129(42):12746-55. Epub 2007 Sep 27. PMID:17900110<ref>PMID:17900110</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 2v3l" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
== | __TOC__ | ||
< | </StructureSection> | ||
[[Category: Berger, S | [[Category: Large Structures]] | ||
[[Category: Eggeling, C | [[Category: Berger, S]] | ||
[[Category: Gaiko, N | [[Category: Eggeling, C]] | ||
[[Category: Griesinger, C | [[Category: Gaiko, N]] | ||
[[Category: Neubauer, H | [[Category: Griesinger, C]] | ||
[[Category: Schaffer, J | [[Category: Neubauer, H]] | ||
[[Category: Seidel, C A.M | [[Category: Schaffer, J]] | ||
[[Category: Tuma, J | [[Category: Seidel, C A.M]] | ||
[[Category: Verdier, L | [[Category: Tuma, J]] | ||
[[Category: Volkmer, A | [[Category: Verdier, L]] | ||
[[Category: Volkmer, A]] | |||
[[Category: Dna]] | [[Category: Dna]] | ||
[[Category: Nucleic acid]] | [[Category: Nucleic acid]] | ||