4kpy: Difference between revisions
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==DNA binding protein and DNA complex structure== | |||
===DNA | <StructureSection load='4kpy' size='340' side='right' caption='[[4kpy]], [[Resolution|resolution]] 2.41Å' scene=''> | ||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[4kpy]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet2 Thet2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KPY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KPY FirstGlance]. <br> | |||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr> | |||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">TT_P0026 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=262724 THET2])</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=4kpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kpy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kpy RCSB], [http://www.ebi.ac.uk/pdbsum/4kpy PDBsum]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
We report on crystal structures of ternary Thermus thermophilus Argonaute (TtAgo) complexes with 5'-phosphorylated guide DNA and a series of DNA targets. These ternary complex structures of cleavage-incompatible, cleavage-compatible, and postcleavage states solved at improved resolution up to 2.2 A have provided molecular insights into the orchestrated positioning of catalytic residues, a pair of Mg2+ cations, and the putative water nucleophile positioned for in-line attack on the cleavable phosphate for TtAgo-mediated target cleavage by a RNase H-type mechanism. In addition, these ternary complex structures have provided insights into protein and DNA conformational changes that facilitate transition between cleavage-incompatible and cleavage-compatible states, including the role of a Glu finger in generating a cleavage-competent catalytic Asp-Glu-Asp-Asp tetrad. Following cleavage, the seed segment forms a stable duplex with the complementary segment of the target strand. | |||
Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage.,Sheng G, Zhao H, Wang J, Rao Y, Tian W, Swarts DC, van der Oost J, Patel DJ, Wang Y Proc Natl Acad Sci U S A. 2013 Dec 27. PMID:24374628<ref>PMID:24374628</ref> | |||
== | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | |||
[[Category: Rao, Y | == References == | ||
[[Category: Sheng, G | <references/> | ||
[[Category: Wang, J | __TOC__ | ||
[[Category: Wang, Y | </StructureSection> | ||
[[Category: Zhao, H | [[Category: Thet2]] | ||
[[Category: Rao, Y]] | |||
[[Category: Sheng, G]] | |||
[[Category: Wang, J]] | |||
[[Category: Wang, Y]] | |||
[[Category: Zhao, H]] | |||
[[Category: Argonaute]] | [[Category: Argonaute]] | ||
[[Category: Dna binding protein-dna complex]] | [[Category: Dna binding protein-dna complex]] | ||
[[Category: Dna interference]] | [[Category: Dna interference]] | ||
[[Category: Rna interference]] | [[Category: Rna interference]] | ||
