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Structure paper

TitleAccommodation of Helical Imperfections in Rhodobacter sphaeroides Argonaute Ternary Complexes with Guide RNA and Target DNA.
Journal, issue, pagesCell Rep, Vol. 24, Page 453-462, Year 2018
Publish dateApr 26, 2018 (structure data deposition date)
AuthorsLiu, Y. / Esyunina, D. / Olovnikov, I. / Teplova, M. / Kulbachinskiy, A. / Aravin, A.A. / Patel, D.J.
External linksCell Rep / PubMed:29996105
MethodsX-ray diffraction
Resolution1.81 - 2.6 Å
Structure data

PDB-6d8a:
RsAgo Ternary Complex with guide RNA and Target DNA Containing A-A Bulge Within the Seed Segment of the Target Strand
Method: X-RAY DIFFRACTION / Resolution: 2.251 Å

PDB-6d8f:
RsAgo Ternary Complex with Guide RNA and Target DNA Containing T-T Bulge Within the Seed Segment
Method: X-RAY DIFFRACTION / Resolution: 2.15 Å

PDB-6d8p:
Ternary RsAgo Complex Containing Guide RNA Paired with Target DNA
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-6d92:
Ternary RsAgo Complex with Guide RNA and Target DNA Containing A-A non-canonical pair at position 3
Method: X-RAY DIFFRACTION / Resolution: 1.81 Å

PDB-6d95:
Ternary RsAgo Complex with Guide RNA Paired and Target DNA containing A8-A8' Non-Canonical Pair
Method: X-RAY DIFFRACTION / Resolution: 1.85 Å

PDB-6d9k:
Ternary RsAgo Complex with Guide RNA and Target DNA Containing A-G Non-canonical Pair
Method: X-RAY DIFFRACTION / Resolution: 2 Å

PDB-6d9l:
Ternary RsAgo Complex with Guide RNA and Target DNA Containing G-A Non-canonical Pair
Method: X-RAY DIFFRACTION / Resolution: 2.6 Å

Chemicals

ChemComp-MPD:
(4S)-2-METHYL-2,4-PENTANEDIOL / precipitant*YM

ChemComp-MG:
Unknown entry

ChemComp-ACT:
ACETATE ION

ChemComp-HOH:
WATER

ChemComp-CAC:
CACODYLATE ION

Source
  • rhodobacter sphaeroides (strain atcc 17025 / ath 2.4.3) (bacteria)
  • rhodobacter sphaeroides atcc 17025 (bacteria)
KeywordsRNA BINDING PROTEIN / Rhodobacter sphaerodes Argounaute (RsAgo); guide RNA; target DNA; RNA-DNA heteroduplex; non-canonical base pairs and bulges / RNA BINDING PROTEIN/RNA/DNA / guide RNA / target DNA / RNA-DNA heteroduplex / non-canonical base pairs and bulges / RNA BINDING PROTEIN-RNA-DNA complex / guide RNA. target DNA. RNA-DNA heteroduplex. non-canonical base pairs and bulges

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