3bm0
From Proteopedia
(Difference between revisions)
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3bm0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BM0 FirstGlance]. <br> | <table><tr><td colspan='2'>[[3bm0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BM0 FirstGlance]. <br> | ||
| - | </td></tr><tr id=' | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8Å</td></tr> |
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=T5S:2-deoxy-5-(methylselanyl)uridine+5-phosphate'>T5S</scene>, <scene name='pdbligand=UMS:2-METHYLSELENYL-2-DEOXYURIDINE-5-PHOSPHATE'>UMS</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=3bm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bm0 OCA], [https://pdbe.org/3bm0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bm0 RCSB], [https://www.ebi.ac.uk/pdbsum/3bm0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bm0 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=3bm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bm0 OCA], [https://pdbe.org/3bm0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bm0 RCSB], [https://www.ebi.ac.uk/pdbsum/3bm0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bm0 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| - | <div style="background-color:#fffaf0;"> | ||
| - | == Publication Abstract from PubMed == | ||
| - | We investigated the possibility of the interaction of 5-CH(3) of thymidine and its 5'-phosphate backbone (C-H...O(-)-PO(3) interaction) in DNA via the insertion of the atomic probe (a selenium atom) into the exo-5-position of thymidine (5-Se-T). 5-Se-T was synthesized for the first time, via Mn(OAc)(3) assisted electrophilic addition of CH(3)SeSeCH(3) to 3',5'-di-O-benzoyl-2'-deoxyuridine. The 5-Se-T phosphoramidite was subsequently synthesized and incorporated into DNA in over 99% coupling yield. Biophysical and structural investigations of the 5-Se-T DNAs revealed that the Se-modified and nonmodified DNAs are virtually identical. In addition, the crystallographic analysis of a 5-Se-T DNA strongly suggests a hydrogen-bond formation between the 5-CH(3) and 5'-phosphate groups (CH(3)...PO(4)(-) interaction). | ||
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| - | Synthesis and crystallographic analysis of 5-Se-thymidine DNAs.,Hassan AE, Sheng J, Jiang J, Zhang W, Huang Z Org Lett. 2009 Jun 18;11(12):2503-6. PMID:19469515<ref>PMID:19469515</ref> | ||
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| - | </div> | ||
| - | <div class="pdbe-citations 3bm0" style="background-color:#fffaf0;"></div> | ||
| - | == References == | ||
| - | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | [[Category: Hassan | + | [[Category: Hassan AE]] |
| - | [[Category: Huang | + | [[Category: Huang Z]] |
| - | [[Category: Jiang | + | [[Category: Jiang J]] |
| - | [[Category: SHeng | + | [[Category: SHeng J]] |
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Current revision
Structure of DNA Octamer G(dUSe)G(5-SedU)ACAC
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Categories: Large Structures | Hassan AE | Huang Z | Jiang J | SHeng J
