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<StructureSection load='3hgd' size='340' side='right'caption='[[3hgd]], [[Resolution|resolution]] 1.57&Aring;' scene=''>
<StructureSection load='3hgd' size='340' side='right'caption='[[3hgd]], [[Resolution|resolution]] 1.57&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3hgd]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HGD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HGD FirstGlance]. <br>
<table><tr><td colspan='2'>[[3hgd]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HGD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HGD FirstGlance]. <br>
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMS:2-METHYLSELENYL-2-DEOXYURIDINE-5-PHOSPHATE'>UMS</scene>, <scene name='pdbligand=US3:1-(2-DEOXY-5-O-PHOSPHONO-BETA-D-ERYTHRO-PENTOFURANOSYL)-5-METHYL-2-SELANYLPYRIMIDIN-4(1H)-ONE'>US3</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]] 1.57&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3hg8|3hg8]], [[3hga|3hga]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=UMS:2-METHYLSELENYL-2-DEOXYURIDINE-5-PHOSPHATE'>UMS</scene>, <scene name='pdbligand=US3:1-(2-DEOXY-5-O-PHOSPHONO-BETA-D-ERYTHRO-PENTOFURANOSYL)-5-METHYL-2-SELANYLPYRIMIDIN-4(1H)-ONE'>US3</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3hgd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hgd OCA], [http://pdbe.org/3hgd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3hgd RCSB], [http://www.ebi.ac.uk/pdbsum/3hgd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3hgd 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=3hgd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hgd OCA], [https://pdbe.org/3hgd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hgd RCSB], [https://www.ebi.ac.uk/pdbsum/3hgd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hgd ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The base pairs are the contributors to the sequence-dependent recognition of nucleic acids, genetic information storage, and high fidelity of DNA polymerase replication. However, the wobble base pairing, where T pairs with G instead of A, reduces specific base-pairing recognition and compromises the high fidelity of the enzymatic polymerization. Via the selenium atomic probing at the 2-position of thymidine, we have investigated the wobble discrimination by manipulating the steric and electronic effects at the 2-exo position, providing a unique chemical strategy to enhance the base pair specificity. We report here the first synthesis of the novel 2-Se-thymidine ((Se)T) derivative, its phosphoramidite, and the Se-DNAs. Our biophysical and structural studies of the 2-Se-T DNAs reveal that the bulky 2-Se atom with a weak hydrogen-bonding ability can largely increase mismatch discriminations (including T/G wobble and T/C mismatched base pairs) while maintaining the (Se)T/A virtually identical to the native T/A base pair. The 2-Se atom bulkiness and the electronic effect are probably the main factors responsible for the discrimination against the formation of the wobble (Se)T/G base pair. Our investigations provide a potential novel tool to investigate the specific recognition of base pairs, which is the basis of high fidelity during replication, transcription, and translation. Furthermore, this Se-atom-specific substitution and probing are useful for X-ray crystal structure and function studies of nucleic acids.
High Fidelity of Base Pairing by 2-Selenothymidine in DNA.,Hassan AE, Sheng J, Zhang W, Huang Z J Am Chem Soc. 2010 Jan 28. PMID:20108896<ref>PMID:20108896</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3hgd" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Hassan, A E]]
[[Category: Hassan AE]]
[[Category: Huang, Z]]
[[Category: Huang Z]]
[[Category: Sheng, J]]
[[Category: Sheng J]]
[[Category: Zhang, W]]
[[Category: Zhang W]]
[[Category: 2-se-thymidine dna]]
[[Category: Dna]]
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