RNA 3D Hub //

Equivalence class NR_4.0_09880.2 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
13ULD|1|B (rep)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 diffraction1.62012-11-14
22G8K|1|B5'-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 diffraction1.652006-04-25
32G8I|1|B5'-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 diffraction1.652006-04-25
45USE|1|BRNA (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 diffraction1.732017-03-08
52G8F|1|B5'-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 diffraction1.652006-04-25
65USA|1|BRNA (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 diffraction1.82017-03-08
72G8U|1|B5'-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 diffraction2.72006-04-25
82R7Y|1|BRNA (5'-R(*UP*CP*GP*AP*CP*A)-3')Selenium Derivatized RNA/DNA Hybrid in complex with RNase H CATALYTIC DOMAIN MUTANT D132NX-ray diffraction1.82008-05-06
95USG|1|BRNA (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 diffraction1.72017-03-08
105US2|1|BRNA (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 diffraction1.92017-03-08
112G8H|1|B5'-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 diffraction1.852006-04-25
123TWH|1|BRNA (5'-R(*UP*CP*GP*AP*CP*A)-3')Selenium Derivatized RNA/DNA Hybrid in complex with RNase H Catalytic Domain D132N MutantX-ray diffraction1.792012-10-03
132G8V|1|B5'-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 diffraction1.852006-04-25
142G8W|1|B5'-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 diffraction2.052006-04-25

Release history

Release2.1182.1192.1202.1212.1222.1232.1242.1252.1262.1272.1282.1292.1302.1312.1322.1332.134
Date2017-03-102017-03-172017-03-242017-03-312017-04-112017-04-152017-04-262017-04-292017-05-092017-05-152017-05-202017-05-272017-06-072017-06-112017-06-212017-06-242017-06-28

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_4.0_09880.2NR_4.0_09880.12.118(10) 3ULD|1|B, 2G8H|1|B, 3TWH|1|B, 2G8F|1|B, 2R7Y|1|B, 2G8W|1|B, 2G8V|1|B, 2G8U|1|B, 2G8K|1|B, 2G8I|1|B(4) 5USE|1|B, 5USA|1|B, 5US2|1|B, 5USG|1|B(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_4.0_09880.2NR_4.0_09880.32.135(14) 2G8U|1|B, 5USE|1|B, 2G8K|1|B, 5USA|1|B, 2G8I|1|B, 5US2|1|B, 2G8H|1|B, 3ULD|1|B, 2G8F|1|B, 3TWH|1|B, 2R7Y|1|B, 2G8W|1|B, 2G8V|1|B, 5USG|1|B(0) (2) 5W7N|1|B, 5W7O|1|B

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
12G8W|1|BB. halodurans RNase H catalytic domain E188A mutant in complex with Ca2+ and RNA/DNA hybridX-RAY DIFFRACTION2.056
23ULD|1|BHigh resolution structure of DNA/RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.66
35USA|1|B5-Se-T2-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.86
45USG|1|B5-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.76
55USE|1|B5-Se-T4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.736
62G8K|1|BB. halodurans RNase H catalytic domain D192N mutant in complex with Ca2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.656
72G8F|1|BB. halodurans RNase H catalytic domain E188A mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.656
82G8I|1|BB. halodurans RNase H catalytic domain D192N mutant in complex with Mn2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.656
92G8H|1|BB. halodurans RNase H catalytic domain D192N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION1.856
102G8U|1|BB. halodurans RNase H catalytic domain D132N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)X-RAY DIFFRACTION2.76
112G8V|1|BB. halodurans RNase H catalytic domain E188A mutant in complex with Mg2+ and RNA/DNA hybrid (reaction product)X-RAY DIFFRACTION1.856
123TWH|1|BSelenium Derivatized RNA/DNA Hybrid in complex with RNase H Catalytic Domain D132N MutantX-RAY DIFFRACTION1.796
132R7Y|1|BSelenium Derivatized RNA/DNA Hybrid in complex with RNase H CATALYTIC DOMAIN MUTANT D132NX-RAY DIFFRACTION1.86
145US2|1|B2-Se-T2-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutantX-RAY DIFFRACTION1.96
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