2kh1

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[[Image:2kh1.png|left|200px]]
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==2-Hydroxy-7-nitrofluorene covalently linked into a 13mer DNA duplex - solution structure of the face-up orientation==
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<StructureSection load='2kh1' size='340' side='right' caption='[[2kh1]], [[NMR_Ensembles_of_Models | 11 NMR models]]' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2kh1]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KH1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KH1 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HNF:7-NITRO-9H-FLUOREN-2-OL'>HNF</scene></td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2kgz|2kgz]], [[2kh0|2kh0]]</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2kh1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kh1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2kh1 RCSB], [http://www.ebi.ac.uk/pdbsum/2kh1 PDBsum]</span></td></tr>
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</table>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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We demonstrate that THz vibrational activity of a biopolymer can be measured locally, on the effective length scale for polar solvation, with an embedded molecular probe. For this purpose, the polarity probe 2-hydroxy-7-nitrofluorene was linked into a 13mer DNA duplex opposite an abasic site. The NMR solution structure shows that the fluorene moiety occupies a well-defined position in place of a base pair but can flip around the long axis on a millisecond time scale. Femtosecond optical pump-probe experiments are used to measure the time-resolved Stokes shift of emission from the probe. The dynamic shifts for solution in H(2)O and D(2)O are quantified. Their difference is much larger than that expected for free water, implying that only bound water is observed. A weak 26 cm(-1) spectral oscillation of the emission band is observed, which is not present when the probe is free in solution and is therefore caused by the supramolecular structure (DNA and hydration water).
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{{STRUCTURE_2kh1| PDB=2kh1 | SCENE= }}
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Local THz time domain spectroscopy of duplex DNA via fluorescence of an embedded probe.,Dallmann A, Pfaffe M, Mugge C, Mahrwald R, Kovalenko SA, Ernsting NP J Phys Chem B. 2009 Nov 26;113(47):15619-28. PMID:19764701<ref>PMID:19764701</ref>
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===2-Hydroxy-7-nitrofluorene covalently linked into a 13mer DNA duplex - solution structure of the face-up orientation===
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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{{ABSTRACT_PUBMED_19764701}}
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== References ==
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<references/>
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==About this Structure==
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__TOC__
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[[2kh1]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KH1 OCA].
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</StructureSection>
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==Reference==
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<ref group="xtra">PMID:019764701</ref><references group="xtra"/>
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[[Category: Dallmann, A.]]
[[Category: Dallmann, A.]]
[[Category: Ernsting, N P.]]
[[Category: Ernsting, N P.]]

Revision as of 15:37, 12 October 2014

2-Hydroxy-7-nitrofluorene covalently linked into a 13mer DNA duplex - solution structure of the face-up orientation

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