4iqs
From Proteopedia
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4iqs]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IQS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IQS FirstGlance]. <br> | <table><tr><td colspan='2'>[[4iqs]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IQS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IQS FirstGlance]. <br> | ||
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=US5:1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-4-SELANYLPYRIMIDIN-2(1H)-ONE'>US5</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6Å</td></tr> |
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=US5:1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-4-SELANYLPYRIMIDIN-2(1H)-ONE'>US5</scene></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4iqs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4iqs OCA], [https://pdbe.org/4iqs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4iqs RCSB], [https://www.ebi.ac.uk/pdbsum/4iqs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4iqs ProSAT]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4iqs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4iqs OCA], [https://pdbe.org/4iqs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4iqs RCSB], [https://www.ebi.ac.uk/pdbsum/4iqs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4iqs ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| - | <div style="background-color:#fffaf0;"> | ||
| - | == Publication Abstract from PubMed == | ||
| - | Unlike DNA, in addition to the 2'-OH group, uracil nucleobase and its modifications play essential roles in structure and function diversities of non-coding RNAs. Non-canonical U*U base pair is ubiquitous in non-coding RNAs, which are highly diversified. However, it is not completely clear how uracil plays the diversifing roles. To investigate and compare the uracil in U-A and U*U base pairs, we have decided to probe them with a selenium atom by synthesizing the novel 4-Se-uridine ((Se)U) phosphoramidite and Se-nucleobase-modified RNAs ((Se)U-RNAs), where the exo-4-oxygen of uracil is replaced by selenium. Our crystal structure studies of U-A and U*U pairs reveal that the native and Se-derivatized structures are virtually identical, and both U-A and U*U pairs can accommodate large Se atoms. Our thermostability and crystal structure studies indicate that the weakened H-bonding in U-A pair may be compensated by the base stacking, and that the stacking of the trans-Hoogsteen U*U pairs may stabilize RNA duplex and its junction. Our result confirms that the hydrogen bond (O4(...)H-C5) of the Hoogsteen pair is weak. Using the Se atom probe, our Se-functionalization studies reveal more insights into the U*U interaction and U-participation in structure and function diversification of nucleic acids. | ||
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| - | Structural insights of non-canonical U*U pair and Hoogsteen interaction probed with Se atom.,Sheng J, Gan J, Soares AS, Salon J, Huang Z Nucleic Acids Res. 2013 Dec 1;41(22):10476-87. doi: 10.1093/nar/gkt799. Epub 2013, Sep 5. PMID:24013566<ref>PMID:24013566</ref> | ||
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| - | </div> | ||
| - | <div class="pdbe-citations 4iqs" style="background-color:#fffaf0;"></div> | ||
| - | == References == | ||
| - | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
Current revision
RNA 8mer duplex modified with 4-Se-Uridine
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Categories: Large Structures | Gan J | Huang Z | Sheng J | Soares A
