1dcr: Difference between revisions
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==CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS== | ==CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS== | ||
<StructureSection load='1dcr' size='340' side='right' caption='[[1dcr]], [[Resolution|resolution]] 1.60Å' scene=''> | <StructureSection load='1dcr' size='340' side='right'caption='[[1dcr]], [[Resolution|resolution]] 1.60Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[1dcr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DCR OCA]. For a <b>guided tour on the structure components</b> use [ | <table><tr><td colspan='2'>[[1dcr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DCR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DCR FirstGlance]. <br> | ||
</td></tr><tr><td class="sblockLbl"><b>[[ | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SPM:SPERMINE'>SPM</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=1dcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dcr OCA], [https://pdbe.org/1dcr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dcr RCSB], [https://www.ebi.ac.uk/pdbsum/1dcr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dcr ProSAT]</span></td></tr> | ||
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | </table> | ||
<table> | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 1dcr" style="background-color:#fffaf0;"></div> | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Gao | [[Category: Large Structures]] | ||
[[Category: Joachimiak | [[Category: Gao Y-G]] | ||
[[Category: Robinson | [[Category: Joachimiak A]] | ||
[[Category: Sanishvili | [[Category: Robinson H]] | ||
[[Category: Wang | [[Category: Sanishvili R]] | ||
[[Category: Wang AH-J]] | |||
Latest revision as of 08:56, 9 August 2023
CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRSCRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS
Structural highlights
Publication Abstract from PubMedG x A mismatched base pairs are frequently found in nucleic acids. Human centromere DNA sequences contain unusual repeating motifs, e.g. , (GAATG)n x (CATTC)n found in the human chromosome. The purine-rich strand of this repeating pentamer sequence forms duplex and hairpin structures with unusual stability. The high stability of these structures is contributed by the "sheared" G x A base pairs which present a novel recognition surface for ligands and proteins. We have solved the crystal structure, by the multiple-wavelength anomalous diffraction (MAD) method of d(CCGAATGAGG) in which the centromere core sequence motif GAATG is embedded. Three crystal forms were refined to near-atomic resolution. The structures reveal the detailed conformation of tandem G x A base pairs whose unique hydrogen-bonding surface has interesting interactions with bases, hydrated magnesium ions, cobalt(III)hexaammine, spermine, and water molecules. The results are relevant in understanding the structure associated with human centromere sequence in particular and G x A base pairs in nucleic acids (including RNA, like ribozyme) in general. Structure and recognition of sheared tandem G x A base pairs associated with human centromere DNA sequence at atomic resolution.,Gao YG, Robinson H, Sanishvili R, Joachimiak A, Wang AH Biochemistry. 1999 Dec 14;38(50):16452-60. PMID:10600106[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References |
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