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229d

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(New page: 200px<br /><applet load="229d" size="350" color="white" frame="true" align="right" spinBox="true" caption="229d" /> '''DNA ANALOG OF YEAST TRANSFER RNA PHE ANTICOD...)
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[[Image:229d.gif|left|200px]]<br /><applet load="229d" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="229d" />
 
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'''DNA ANALOG OF YEAST TRANSFER RNA PHE ANTICODON DOMAIN WITH MODIFIED BASES 5-METHYL CYTOSINE AND 1-METHYL GUANINE'''<br />
 
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==Overview==
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==DNA ANALOG OF YEAST TRANSFER RNA PHE ANTICODON DOMAIN WITH MODIFIED BASES 5-METHYL CYTOSINE AND 1-METHYL GUANINE==
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Design of biologically active DNA analogues of the yeast tRNA(Phe), anticodon domain, tDNAPheAC, required the introduction of a, d(m5C)-dependent, Mg(2+)-induced structural transition and the d(m1G), disruption of an intra-loop dC.dG base pair. The modifications were, introduced at residues corresponding to m5C-40 and wybutosine-37 in, tRNA(Phe). Modified tDNAPheAC inhibited translation by 50% at a, tDNAPheAC:ribosome ratio of 8:1. The molecule's structure has been, determined by NMR spectroscopy and restrained molecular dynamics with an, overall r.m.s.d. of 2.8 A and 1.7 A in the stem, and is similar to the, tRNA(Phe) anticodon domain in conformation and dimensions. The tDNAPheAC, structure may provide a guide for the design of translation inhibitors as, potential therapeutic agents.
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<StructureSection load='229d' size='340' side='right'caption='[[229d]]' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[229d]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=229D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=229D FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=MG1:2-DEOXY-1-METHYLGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>MG1</scene>, <scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></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=229d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=229d OCA], [https://pdbe.org/229d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=229d RCSB], [https://www.ebi.ac.uk/pdbsum/229d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=229d ProSAT]</span></td></tr>
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</table>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Design of biologically active DNA analogues of the yeast tRNA(Phe) anticodon domain, tDNAPheAC, required the introduction of a d(m5C)-dependent, Mg(2+)-induced structural transition and the d(m1G) disruption of an intra-loop dC.dG base pair. The modifications were introduced at residues corresponding to m5C-40 and wybutosine-37 in tRNA(Phe). Modified tDNAPheAC inhibited translation by 50% at a tDNAPheAC:ribosome ratio of 8:1. The molecule's structure has been determined by NMR spectroscopy and restrained molecular dynamics with an overall r.m.s.d. of 2.8 A and 1.7 A in the stem, and is similar to the tRNA(Phe) anticodon domain in conformation and dimensions. The tDNAPheAC structure may provide a guide for the design of translation inhibitors as potential therapeutic agents.
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==About this Structure==
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Design, biological activity and NMR-solution structure of a DNA analogue of yeast tRNA(Phe) anticodon domain.,Basti MM, Stuart JW, Lam AT, Guenther R, Agris PF Nat Struct Biol. 1996 Jan;3(1):38-44. PMID:8548453<ref>PMID:8548453</ref>
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229D 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=229D OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Design, biological activity and NMR-solution structure of a DNA analogue of yeast tRNA(Phe) anticodon domain., Basti MM, Stuart JW, Lam AT, Guenther R, Agris PF, Nat Struct Biol. 1996 Jan;3(1):38-44. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8548453 8548453]
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</div>
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[[Category: Protein complex]]
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<div class="pdbe-citations 229d" style="background-color:#fffaf0;"></div>
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[[Category: Agris, P.F.]]
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== References ==
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[[Category: Basti, M.M.]]
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<references/>
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[[Category: Guenther, R.]]
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__TOC__
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[[Category: Lam, A.T.]]
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</StructureSection>
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[[Category: Stuart, J.W.]]
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[[Category: Large Structures]]
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[[Category: anticodon]]
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[[Category: Agris PF]]
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[[Category: dna]]
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[[Category: Basti MM]]
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[[Category: hairpin loop]]
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[[Category: Guenther R]]
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[[Category: transfer rna]]
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[[Category: Lam AT]]
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[[Category: Stuart JW]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 17:48:06 2008''
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Current revision

DNA ANALOG OF YEAST TRANSFER RNA PHE ANTICODON DOMAIN WITH MODIFIED BASES 5-METHYL CYTOSINE AND 1-METHYL GUANINE

PDB ID 229d

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