229d

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|PDB= 229d |SIZE=350|CAPTION= <scene name='initialview01'>229d</scene>
|PDB= 229d |SIZE=350|CAPTION= <scene name='initialview01'>229d</scene>
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|LIGAND= <scene name='pdbligand=5CM:5-METHYL-2&#39;-DEOXY-CYTIDINE-5&#39;-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=MG1:2&#39;-DEOXY-1-METHYLGUANOSINE+5&#39;-(DIHYDROGEN+PHOSPHATE)'>MG1</scene>, <scene name='pdbligand=UMP:2&#39;-DEOXYURIDINE+5&#39;-MONOPHOSPHATE'>UMP</scene>
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|ACTIVITY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=229d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=229d OCA], [http://www.ebi.ac.uk/pdbsum/229d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=229d RCSB]</span>
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[[Category: transfer rna]]
[[Category: transfer rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:42:34 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:44:43 2008''

Revision as of 22:44, 30 March 2008

Image:229d.gif


PDB ID 229d

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Ligands: , , , , ,
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



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


Overview

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.

About this Structure

229D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

Reference

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

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