362d: Difference between revisions
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'''THE STRUCTURE OF D(TGCGCA)2 AND A COMPARISON TO OTHER Z-DNA HEXAMERS''' | '''THE STRUCTURE OF D(TGCGCA)2 AND A COMPARISON TO OTHER Z-DNA HEXAMERS''' | ||
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==About this Structure== | ==About this Structure== | ||
This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=347d 347d]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=362D OCA]. | |||
==Reference== | ==Reference== | ||
Structure of d(TGCGCA)2 and a comparison to other DNA hexamers., Harper A, Brannigan JA, Buck M, Hewitt L, Lewis RJ, Moore MH, Schneider B, Acta Crystallogr D Biol Crystallogr. 1998 Nov 1;54(Pt 6 Pt 2):1273-84. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10089504 10089504] | Structure of d(TGCGCA)2 and a comparison to other DNA hexamers., Harper A, Brannigan JA, Buck M, Hewitt L, Lewis RJ, Moore MH, Schneider B, Acta Crystallogr D Biol Crystallogr. 1998 Nov 1;54(Pt 6 Pt 2):1273-84. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10089504 10089504] | ||
[[Category: Brannigan, J A.]] | [[Category: Brannigan, J A.]] | ||
[[Category: Buck, M.]] | [[Category: Buck, M.]] | ||
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[[Category: Moore, M H.]] | [[Category: Moore, M H.]] | ||
[[Category: Schneider, B.]] | [[Category: Schneider, B.]] | ||
[[Category: | [[Category: Double helix]] | ||
[[Category: | [[Category: Z-dna]] | ||
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Revision as of 20:17, 4 May 2008
THE STRUCTURE OF D(TGCGCA)2 AND A COMPARISON TO OTHER Z-DNA HEXAMERS
OverviewOverview
The X-ray crystal structure of d(TGCGCA)2 has been determined at 120 K to a resolution of 1.3 A. Hexamer duplexes, in the Z-DNA conformation, pack in an arrangement similar to the 'pure spermine form' [Egli et al. (1991). Biochemistry, 30, 11388-11402] but with significantly different cell dimensions. The phosphate backbone exists in two equally populated discrete conformations at one nucleotide step, around phosphate 11. The structure contains two ordered cobalt hexammine molecules which have roles in stabilization of both the Z-DNA conformation of the duplex and in crystal packing. A comparison of d(TGCGCA)2 with other Z-DNA hexamer structures available in the Nucleic Acid Database illustrates the elusive nature of crystal packing. A review of the interactions with the metal cations Na+, Mg2+ and Co3+ reveals a relatively small proportion of phosphate binding and that close contacts between metal ions are common. A prediction of the water structure is compared with the observed pattern in the reported structure.
About this StructureAbout this Structure
This structure supersedes the now removed PDB entry 347d. Full crystallographic information is available from OCA.
ReferenceReference
Structure of d(TGCGCA)2 and a comparison to other DNA hexamers., Harper A, Brannigan JA, Buck M, Hewitt L, Lewis RJ, Moore MH, Schneider B, Acta Crystallogr D Biol Crystallogr. 1998 Nov 1;54(Pt 6 Pt 2):1273-84. PMID:10089504 Page seeded by OCA on Sun May 4 20:17:20 2008