1rsb: Difference between revisions
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== | ==X-ray study of the DNA oligomer d(ATATAT) in P65 space group== | ||
<StructureSection load='1rsb' size='340' side='right'caption='[[1rsb]], [[Resolution|resolution]] 2.17Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[1rsb]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RSB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RSB FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.17Å</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=1rsb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rsb OCA], [https://pdbe.org/1rsb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rsb RCSB], [https://www.ebi.ac.uk/pdbsum/1rsb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rsb ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
We present and analyze the structure of the oligonucleotide d(ATATAT) found in two different forms by X-ray crystallography and in solution by NMR. We find that in both crystal lattices the oligonucleotide forms an antiparallel double helical duplex in which base pairing is of the Hoogsteen type. The double helix is apparently very similar to the standard B-form of DNA, with about 10 base pairs per turn. However, the adenines in the duplex are flipped over; as a result, the physicochemical features of both grooves of the helix are changed. In particular, the minor groove is narrow and hydrophobic. On the other hand, d(ATATAT) displays a propensity to adopt the B conformation in solution. These results confirm the polymorphism of AT-rich sequences in DNA. Furthermore, we show that extrahelical adenines and thymines can be minor groove binders in Hoogsteen DNA. | We present and analyze the structure of the oligonucleotide d(ATATAT) found in two different forms by X-ray crystallography and in solution by NMR. We find that in both crystal lattices the oligonucleotide forms an antiparallel double helical duplex in which base pairing is of the Hoogsteen type. The double helix is apparently very similar to the standard B-form of DNA, with about 10 base pairs per turn. However, the adenines in the duplex are flipped over; as a result, the physicochemical features of both grooves of the helix are changed. In particular, the minor groove is narrow and hydrophobic. On the other hand, d(ATATAT) displays a propensity to adopt the B conformation in solution. These results confirm the polymorphism of AT-rich sequences in DNA. Furthermore, we show that extrahelical adenines and thymines can be minor groove binders in Hoogsteen DNA. | ||
X-ray and NMR studies of the DNA oligomer d(ATATAT): Hoogsteen base pairing in duplex DNA.,Abrescia NG, Gonzalez C, Gouyette C, Subirana JA Biochemistry. 2004 Apr 13;43(14):4092-100. PMID:15065851<ref>PMID:15065851</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
[[Category: | <div class="pdbe-citations 1rsb" style="background-color:#fffaf0;"></div> | ||
[[Category: Abrescia | == References == | ||
[[Category: Gonzalez | <references/> | ||
[[Category: Gouyette | __TOC__ | ||
[[Category: Subirana | </StructureSection> | ||
[[Category: Large Structures]] | |||
[[Category: Abrescia NG]] | |||
[[Category: Gonzalez C]] | |||
[[Category: Gouyette C]] | |||
[[Category: Subirana JA]] | |||
