RNA 3D Hub //

Equivalence class NR_3.5_77413.1 Current

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
15USG|1|B+ 5USG|1|C (rep)DNA (5'-D(*AP*(T5S)P*GP*(T5S)P*CP*G)-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')synthetic construct5-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.7122017-03-08
22G8I|1|B+ 2G8I|1|C5'-D(*AP*TP*GP*TP*CP*G)-3', 5'-R(*UP*CP*GP*AP*CP*A)-3'B. halodurans RNase H catalytic domain D192N mutant in complex with Mn2+ and RNA/DNA hybrid (non-P nick at the active site)X-ray diffraction1.65122006-04-25
33ULD|1|B+ 3ULD|1|CDNA (5'-D(*AP*TP*GP*TP*CP*(PGN))-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')High resolution structure of DNA/RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.6122012-11-14
42G8F|1|B+ 2G8F|1|C5'-D(*AP*TP*GP*TP*CP*G)-3', 5'-R(*UP*CP*GP*AP*CP*A)-3'B. halodurans RNase H catalytic domain E188A mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-ray diffraction1.65122006-04-25
53TWH|1|B+ 3TWH|1|CDNA (5'-D(*AP*TP*(SDG)P*TP*CP*(SDG))-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')Selenium Derivatized RNA/DNA Hybrid in complex with RNase H Catalytic Domain D132N MutantX-ray diffraction1.79122012-10-03
65USA|1|B+ 5USA|1|CDNA (5'-D(*AP*(T5S)P*GP*TP*CP*G)-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')synthetic construct5-Se-T2-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.8122017-03-08
75W7O|1|B+ 5W7O|1|CDNA (5'-D(*AP*TP*GP*(US3)P*CP*G)-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')synthetic construct2-Se-T4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.75122017-06-28
85WJR|1|B+ 5WJR|1|CDNA (5'-D(*AP*TP*GP*TP*CP*G)-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')synthetic constructHigh resolution native hexamer DNA and RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.7122017-08-09
95USE|1|B+ 5USE|1|CDNA (5'-D(*AP*TP*GP*(T5S)P*CP*G)-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')synthetic construct5-Se-T4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.73122017-03-08
105US2|1|B+ 5US2|1|CDNA (5'-D(*AP*(US3)P*GP*TP*CP*G)-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')synthetic construct2-Se-T2-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.9122017-03-08
112G8K|1|B+ 2G8K|1|C5'-D(*AP*TP*GP*TP*CP*G)-3', 5'-R(*UP*CP*GP*AP*CP*A)-3'B. halodurans RNase H catalytic domain D192N mutant in complex with Ca2+ and RNA/DNA hybrid (non-P nick at the active site)X-ray diffraction1.65122006-04-25
125W7N|1|B+ 5W7N|1|CDNA (5'-D(*AP*(US3)P*GP*(US3)P*CP*G)-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')synthetic construct2-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-ray diffraction1.8122017-06-28
132R7Y|1|B+ 2R7Y|1|CDNA (5'-D(*DAP*DTP*(SDG)P*DTP*DCP*(SDG))-3'), RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')Selenium Derivatized RNA/DNA Hybrid in complex with RNase H CATALYTIC DOMAIN MUTANT D132NX-ray diffraction1.8122008-05-06
142G8H|1|B+ 2G8H|1|C5'-D(*AP*TP*GP*TP*CP*G)-3', 5'-R(*UP*CP*GP*AP*CP*A)-3'B. halodurans RNase H catalytic domain D192N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-ray diffraction1.85122006-04-25
152G8V|1|B+ 2G8V|1|C5'-D(*AP*TP*GP*TP*CP*G)-3', 5'-R(P*UP*CP*GP*AP*CP*A)-3'B. halodurans RNase H catalytic domain E188A mutant in complex with Mg2+ and RNA/DNA hybrid (reaction product)X-ray diffraction1.85122006-04-25
162G8W|1|B+ 2G8W|1|C5'-D(*AP*TP*GP*TP*CP*G)-3', 5'-R(P*UP*CP*GP*AP*CP*A)-3'B. halodurans RNase H catalytic domain E188A mutant in complex with Ca2+ and RNA/DNA hybridX-ray diffraction2.05122006-04-25
172G8U|1|B+ 2G8U|1|C5'-D(*AP*TP*GP*TP*CP*G)-3', 5'-R(*UP*CP*GP*AP*CP*A)-3'B. halodurans RNase H catalytic domain D132N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-ray diffraction2.7122006-04-25

Release history

Release3.3783.3793.3803.3813.3823.3833.384
Date2025-03-132025-03-192025-03-262025-04-022025-04-092025-04-162025-04-23

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.

#SViewPDBTitleMethodResolution#NTs
12G8W|1|B+ 2G8W|1|CB. halodurans RNase H catalytic domain E188A mutant in complex with Ca2+ and RNA/DNA hybridX-RAY DIFFRACTION2.0512
23ULD|1|B+ 3ULD|1|CHigh resolution structure of DNA/RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.612
35USA|1|B+ 5USA|1|C5-Se-T2-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.812
45W7O|1|B+ 5W7O|1|C2-Se-T4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.7512
55USE|1|B+ 5USE|1|C5-Se-T4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.7312
65USG|1|B+ 5USG|1|C5-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.712
75WJR|1|B+ 5WJR|1|CHigh resolution native hexamer DNA and RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.712
82G8K|1|B+ 2G8K|1|CB. halodurans RNase H catalytic domain D192N mutant in complex with Ca2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.6512
92G8F|1|B+ 2G8F|1|CB. halodurans RNase H catalytic domain E188A mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.6512
102G8I|1|B+ 2G8I|1|CB. halodurans RNase H catalytic domain D192N mutant in complex with Mn2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.6512
112G8H|1|B+ 2G8H|1|CB. halodurans RNase H catalytic domain D192N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.8512
125W7N|1|B+ 5W7N|1|C2-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.812
132G8U|1|B+ 2G8U|1|CB. halodurans RNase H catalytic domain D132N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION2.712
142G8V|1|B+ 2G8V|1|CB. halodurans RNase H catalytic domain E188A mutant in complex with Mg2+ and RNA/DNA hybrid (reaction product)X-RAY DIFFRACTION1.8512
153TWH|1|B+ 3TWH|1|CSelenium Derivatized RNA/DNA Hybrid in complex with RNase H Catalytic Domain D132N MutantX-RAY DIFFRACTION1.7912
162R7Y|1|B+ 2R7Y|1|CSelenium Derivatized RNA/DNA Hybrid in complex with RNase H CATALYTIC DOMAIN MUTANT D132NX-RAY DIFFRACTION1.812
175US2|1|B+ 5US2|1|C2-Se-T2-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.912

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.


Coloring options:

Copyright 2025 BGSU RNA group. Page generated in 0.0133 s