1dcr: Difference between revisions

Revision as of 13:15, 21 February 2008

CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS

OverviewOverview

G 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.

About this StructureAbout this Structure

1DCR is a Protein complex structure of sequences from [1] with , and as ligands. Full crystallographic information is available from OCA.

ReferenceReference

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

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OCA

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 caption="1dcr, resolution 1.60&Aring;" />
 '''CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS'''<br />
 ==Overview==
-G 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.
+G 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.
 ==About this Structure==
-DCR is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with SPM, NA and MG as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1DCR OCA].
+DCR is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=SPM:'>SPM</scene>, <scene name='pdbligand=NA:'>NA</scene> and <scene name='pdbligand=MG:'>MG</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DCR OCA].
 ==Reference==
 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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10600106 10600106]
 [[Category: Protein complex]]
-[[Category: Gao, Y.G.]]
+[[Category: Gao, Y G.]]
 [[Category: Joachimiak, A.]]
 [[Category: Robinson, H.]]
 [[Category: Sanishvili, R.]]
-[[Category: Wang, A.H.J.]]
+[[Category: Wang, A H.J.]]
 [[Category: MG]]
 [[Category: NA]]
@@ Line 24: / Line 24: @@
 [[Category: tandem ga base pairs]]
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