BGSU RNA Site //

Equivalence class NR_4.0_26629.3 Current

#IFEStandardized nameMoleculeOrganismDomainRfamTitleMethodÅDate
13HK2|1|F (rep)5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3'Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strandX-ray diffraction2.82009-10-06
23HK2|1|D5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3'Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strandX-ray diffraction2.82009-10-06
35UX0|1|BRNA (5'-R(*G*GP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*AP*U)-3')synthetic constructSyntheticX-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNAX-ray diffraction3.22017-05-03
45UX0|1|ERNA (5'-R(*G*GP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*AP*U)-3')synthetic constructSyntheticX-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNAX-ray diffraction3.22017-05-03
53HVR|1|D5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3'Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage siteX-ray diffraction3.212009-10-06
63HM9|1|Y5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3'Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strandX-ray diffraction3.32009-10-06
73HVR|1|N5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3'Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage siteX-ray diffraction3.212009-10-06
83F73|1|YRNA (5'-R(*UP*AP*UP*AP*CP*AP*A*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3')Alignment of guide-target seed duplex within an argonaute silencing complexX-ray diffraction32008-12-16
93HXM|1|YRNA (5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3')Structure of an argonaute complexed with guide DNA and target RNA duplex containing two mismatches.X-ray diffraction3.12009-10-06
103F73|1|HRNA (5'-R(*UP*AP*UP*AP*CP*AP*A*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3')Alignment of guide-target seed duplex within an argonaute silencing complexX-ray diffraction32008-12-16
118DGA|1|F+ 8DGA|1|ERNA (22-MER)Drosophila melanogasterEukaryaStructural Basis of MicroRNA Biogenesis by Dicer-1 and Its Partner Protein Loqs-PB - complex IVElectron microscopy3.732022-11-16
127V6C|1|F+ 7V6C|1|ERNA (5'-R(P*CP*CP*UP*CP*UP*CP*U)-3'), RNA (5'-R(P*UP*GP*AP*GP*G)-3')Drosophila melanogasterEukaryaStructure of the Dicer-2-R2D2 heterodimer bound to small RNA duplexElectron microscopy3.32022-03-23

Release history

Release3.2573.2583.2593.2603.2613.2623.2633.2643.2653.2663.2673.2683.2693.2703.2713.2723.2733.2743.275
Date2022-11-162022-11-232022-11-302022-12-072022-12-142022-12-212022-12-282023-01-042023-01-112023-01-182023-01-252023-02-012023-02-082023-02-152023-02-222023-03-012023-03-082023-03-152023-03-22

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_4.0_26629.3NR_4.0_26629.23.257(11) 3HK2|1|D, 3F73|1|Y, 3F73|1|H, 7V6C|1|F+7V6C|1|E, 5UX0|1|E, 5UX0|1|B, 3HXM|1|Y, 3HVR|1|N, 3HVR|1|D, 3HM9|1|Y, 3HK2|1|F(1) 8DGA|1|F+8DGA|1|E(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5

#S - ordering by similarity (same as in the heat map).
#SPDBTitleMethodResolutionLength
13F73|1|HAlignment of guide-target seed duplex within an argonaute silencing complexX-RAY DIFFRACTION312
23F73|1|YAlignment of guide-target seed duplex within an argonaute silencing complexX-RAY DIFFRACTION311
33HXM|1|YStructure of an argonaute complexed with guide DNA and target RNA duplex containing two mismatches.X-RAY DIFFRACTION3.19
43HVR|1|DCrystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage siteX-RAY DIFFRACTION3.2112
53HVR|1|NCrystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage siteX-RAY DIFFRACTION3.2110
63HK2|1|DCrystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strandX-RAY DIFFRACTION2.815
73HK2|1|FCrystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strandX-RAY DIFFRACTION2.815
83HM9|1|YCrystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strandX-RAY DIFFRACTION3.313
98DGA|1|F+8DGA|1|EStructural Basis of MicroRNA Biogenesis by Dicer-1 and Its Partner Protein Loqs-PB - complex IVELECTRON MICROSCOPY3.7322
107V6C|1|F+7V6C|1|EStructure of the Dicer-2-R2D2 heterodimer bound to small RNA duplexELECTRON MICROSCOPY3.37
115UX0|1|EX-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNAX-RAY DIFFRACTION3.218
125UX0|1|BX-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNAX-RAY DIFFRACTION3.220