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414d

From Proteopedia

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(New page: 200px<br /><applet load="414d" size="350" color="white" frame="true" align="right" spinBox="true" caption="414d, resolution 1.900&Aring;" /> '''5'-D(*GP*GP*GP*GP*C...)
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[[Image:414d.gif|left|200px]]<br /><applet load="414d" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="414d, resolution 1.900&Aring;" />
 
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'''5'-D(*GP*GP*GP*GP*CP*GP*CP*CP*CP*C)-3''''<br />
 
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==Overview==
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==5'-D(*GP*GP*GP*GP*CP*GP*CP*CP*CP*C)-3'==
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The crystal and molecular structure of the self-complementary A-DNA, decamer sequence d(G4CGC4) was solved at 1.9 A resolution. The decamer, crystallizes in space group P21 with two independent duplexes in the, asymmetric unit. Duplex 1 has interactions which are distributed, symmetrically about its length compared with duplex 2. The two end base, pairs of duplex 1 have a similar NH.O hydrogen-bond pattern involving GGC, segments of duplex 2 and a symmetry-related neighbour, while the end base, pairs of duplex 2 interact with the GCC and GGG segments of its, symmetry-related neighbours through NH.O and NH.N hydrogen bonds and a, water-mediated hydrogen bond between the carboxyl groups of C40 and C8. In, addition to the C4'-C5' torsion angle gamma assuming the trans, conformation in certain steps, this angle also adopts the gauche-, conformation at C37 as opposed to the preferred gauche+ conformation, with, a concomitant change in phosphodiester P-O5' (alpha) in the opposite, sense. This facilitates stacking between adjacent bases. The study, suggests that the structural alterations in the two molecules in the, asymmetric unit originate from an inherent propensity of the d(G4CGC4), base sequence for varied intermolecular interactions and malleability.
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<StructureSection load='414d' size='340' side='right'caption='[[414d]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[414d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=414D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=414D FirstGlance]. <br>
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414D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=414D OCA].
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=414d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=414d OCA], [https://pdbe.org/414d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=414d RCSB], [https://www.ebi.ac.uk/pdbsum/414d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=414d ProSAT]</span></td></tr>
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==Reference==
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</table>
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An A-DNA structure with two independent duplexes in the asymmetric unit., Savitha G, Viswamitra MA, Acta Crystallogr D Biol Crystallogr. 1999 Jun;55(Pt 6):1136-43. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10329775 10329775]
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__TOC__
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[[Category: Protein complex]]
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</StructureSection>
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[[Category: Savitha, G.]]
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[[Category: Large Structures]]
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[[Category: Viswamitra, M. A.]]
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[[Category: Savitha G]]
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[[Category: a-dna]]
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[[Category: Viswamitra MA]]
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[[Category: double helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 21:42:36 2008''
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Current revision

5'-D(*GP*GP*GP*GP*CP*GP*CP*CP*CP*C)-3'

PDB ID 414d

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