1g2j

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==RNA OCTAMER R(CCCP*GGGG) CONTAINING PHENYL RIBONUCLEOTIDE==
==RNA OCTAMER R(CCCP*GGGG) CONTAINING PHENYL RIBONUCLEOTIDE==
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<StructureSection load='1g2j' size='340' side='right' caption='[[1g2j]], [[Resolution|resolution]] 1.97&Aring;' scene=''>
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<StructureSection load='1g2j' size='340' side='right'caption='[[1g2j]], [[Resolution|resolution]] 1.97&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[1g2j]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G2J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G2J FirstGlance]. <br>
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<table><tr><td colspan='2'>[[1g2j]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G2J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G2J FirstGlance]. <br>
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</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
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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]] 1.97&#8491;</td></tr>
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<tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYY:D-RIBOFURANOSYL-BENZENE-5-MONOPHOSPHATE'>PYY</scene></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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=PYY:D-RIBOFURANOSYL-BENZENE-5-MONOPHOSPHATE'>PYY</scene></td></tr>
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<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1g2j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g2j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1g2j RCSB], [http://www.ebi.ac.uk/pdbsum/1g2j PDBsum]</span></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=1g2j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g2j OCA], [https://pdbe.org/1g2j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g2j RCSB], [https://www.ebi.ac.uk/pdbsum/1g2j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g2j ProSAT]</span></td></tr>
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<table>
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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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Chemically modified nucleotide analogs have gained widespread popularity for probing structure-function relationships. Among the modifications that were incorporated into RNAs for assessing the role of individual functional groups, the phenyl nucleotide has displayed surprising effects both in the contexts of the hammerhead ribozyme and pre-mRNA splicing. To examine the conformational properties of this hydrophobic base analog, we determined the crystal structure of an RNA double helix with incorporated phenyl ribonucleotides at 1.97 A resolution. In the structure, phenyl residues are engaged in self-pairing and their arrangements suggest energetically favorable stacking interactions with 3'-adjacent guanines. The presence of the phenyl rings in the center of the duplex results in only moderate changes of the helical geometry. This finding is in line with those of earlier experiments that showed the phenyl analog to be a remarkably good mimetic of natural base function. Because the stacking interactions displayed by phenyl residues appear to be similar to those for natural bases, reduced conformational restriction due to the lack of hydrogen bonds with phenyl as well as alterations in its solvent structure may be the main causes of the activity changes with phenyl-modified RNAs.
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Crystal structure of an RNA duplex containing phenyl-ribonucleotides, hydrophobic isosteres of the natural pyrimidines.,Minasov G, Matulic-Adamic J, Wilds CJ, Haeberli P, Usman N, Beigelman L, Egli M RNA. 2000 Nov;6(11):1516-28. PMID:11105752<ref>PMID:11105752</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Beigelman, L.]]
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[[Category: Large Structures]]
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[[Category: Egli, M.]]
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[[Category: Beigelman L]]
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[[Category: Haeberli, P.]]
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[[Category: Egli M]]
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[[Category: Matulic-Adamic, J.]]
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[[Category: Haeberli P]]
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[[Category: Minasov, G.]]
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[[Category: Matulic-Adamic J]]
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[[Category: Usman, N.]]
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[[Category: Minasov G]]
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[[Category: Wilds, C J.]]
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[[Category: Usman N]]
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[[Category: Phenyl-ribonucleotide]]
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[[Category: Wilds CJ]]
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[[Category: Rna]]
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[[Category: Rna duplex]]
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Current revision

RNA OCTAMER R(CCCP*GGGG) CONTAINING PHENYL RIBONUCLEOTIDE

PDB ID 1g2j

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