4NCA
Structure of Thermus thermophilus Argonaute bound to guide DNA 19-mer and target DNA in the presence of Mg2+
Summary for 4NCA
Entry DOI | 10.2210/pdb4nca/pdb |
Related | 4N41 4N47 4N76 4NCB |
Descriptor | Argonaute, 5'-D(P*TP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*TP*AP*TP*AP*GP*T)-3', 5'-D(P*TP*AP*CP*TP*AP*CP*CP*TP*CP*G)-3', ... (7 entities in total) |
Functional Keywords | argonaute, rna interference, dna interference, nuclear protein-dna complex, nuclear protein/dna |
Biological source | Thermus thermophilus |
Total number of polymer chains | 8 |
Total formula weight | 176908.60 |
Authors | |
Primary citation | Sheng, G.,Zhao, H.,Wang, J.,Rao, Y.,Tian, W.,Swarts, D.C.,van der Oost, J.,Patel, D.J.,Wang, Y. Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage. Proc.Natl.Acad.Sci.USA, 111:652-657, 2014 Cited by PubMed Abstract: 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 Å have provided molecular insights into the orchestrated positioning of catalytic residues, a pair of Mg(2+) 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. PubMed: 24374628DOI: 10.1073/pnas.1321032111 PDB entries with the same primary citation |
Experimental method | X-RAY DIFFRACTION (2.489 Å) |
Structure validation
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