RNA 3D Hub //

Equivalence class NR_20.0_67348.1 Current

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
18KAJ|1|I+ 8KAJ|1|A+ 8KAJ|1|C+ 8KAJ|1|D (rep)Trans-activating crRNADNA (5'-D(*CP*AP*AP*TP*AP*CP*CP*TP*TP*TP*TP*AP*TP*CP*CP*AP*TP*AP*AP*AP*TP*TP*CP*G)-3'), DNA (5'-D(*TP*TP*TP*AP*GP*GP*TP*AP*TP*TP*G)-3'), RNA (34-MER), RNA (65-MER)Streptococcus pyogenes serotype M1BacteriaRF02348Crystal structure of SpyCas9-crRNA-tracrRNA complex bound to 16nt target DNAX-ray diffraction3.421322024-06-05
28KAH|1|I+ 8KAH|1|A+ 8KAH|1|C+ 8KAH|1|DTrans-activating crRNADNA (26-MER), DNA (5'-D(*TP*TP*TP*AP*GP*GP*TP*AP*TP*TP*G)-3'), RNA (34-MER), RNA (65-MER)Streptococcus pyogenes serotype M1BacteriaRF02348Crystal structure of SpyCas9-crRNA-tracrRNA complex bound to 18nt target DNAX-ray diffraction3.361342024-06-05
38KAH|1|J+ 8KAH|1|E+ 8KAH|1|G+ 8KAH|1|HTrans-activating crRNADNA (26-MER), DNA (5'-D(*TP*TP*TP*AP*GP*GP*TP*AP*TP*TP*G)-3'), RNA (34-MER), RNA (65-MER)Streptococcus pyogenes serotype M1BacteriaRF02348Crystal structure of SpyCas9-crRNA-tracrRNA complex bound to 18nt target DNAX-ray diffraction3.361322024-06-05
48KAJ|1|J+ 8KAJ|1|E+ 8KAJ|1|G+ 8KAJ|1|HTrans-activating crRNADNA (5'-D(*CP*AP*AP*TP*AP*CP*CP*TP*TP*TP*TP*AP*TP*CP*CP*AP*TP*AP*AP*AP*TP*TP*CP*G)-3'), DNA (5'-D(*TP*TP*TP*AP*GP*GP*TP*AP*TP*TP*G)-3'), RNA (34-MER), RNA (65-MER)Streptococcus pyogenes serotype M1BacteriaRF02348Crystal structure of SpyCas9-crRNA-tracrRNA complex bound to 16nt target DNAX-ray diffraction3.421292024-06-05
58KAI|1|I+ 8KAI|1|A+ 8KAI|1|C+ 8KAI|1|DTrans-activating crRNADNA (25-MER), DNA (5'-D(*TP*TP*TP*AP*GP*GP*TP*AP*TP*TP*G)-3'), RNA (34-MER), RNA (65-MER)Streptococcus pyogenes serotype M1BacteriaRF02348Crystal structure of SpyCas9-crRNA-tracrRNA complex bound to 17nt target DNAX-ray diffraction3.491332024-06-05
68KAI|1|J+ 8KAI|1|E+ 8KAI|1|GTrans-activating crRNADNA (25-MER), DNA (5'-D(*TP*TP*TP*AP*GP*GP*TP*AP*TP*TP*G)-3'), RNA (34-MER), RNA (65-MER)Streptococcus pyogenes serotype M1BacteriaRF02348Crystal structure of SpyCas9-crRNA-tracrRNA complex bound to 17nt target DNAX-ray diffraction3.491192024-06-05

Release history

Release3.3783.3793.3803.3813.3823.3833.3843.3853.3863.3873.3883.3893.3903.3913.3923.393
Date2025-03-132025-03-192025-03-262025-04-022025-04-092025-04-162025-04-232025-04-302025-05-072025-05-142025-05-212025-05-282025-06-042025-06-112025-06-182025-06-25

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
18KAH|1|J+ 8KAH|1|E+ 8KAH|1|G+ 8KAH|1|HCrystal structure of SpyCas9-crRNA-tracrRNA complex bound to 18nt target DNAX-RAY DIFFRACTION3.36132
28KAJ|1|J+ 8KAJ|1|E+ 8KAJ|1|G+ 8KAJ|1|HCrystal structure of SpyCas9-crRNA-tracrRNA complex bound to 16nt target DNAX-RAY DIFFRACTION3.42129
38KAI|1|J+ 8KAI|1|E+ 8KAI|1|GCrystal structure of SpyCas9-crRNA-tracrRNA complex bound to 17nt target DNAX-RAY DIFFRACTION3.49119
48KAH|1|I+ 8KAH|1|A+ 8KAH|1|C+ 8KAH|1|DCrystal structure of SpyCas9-crRNA-tracrRNA complex bound to 18nt target DNAX-RAY DIFFRACTION3.36134
58KAJ|1|I+ 8KAJ|1|A+ 8KAJ|1|C+ 8KAJ|1|DCrystal structure of SpyCas9-crRNA-tracrRNA complex bound to 16nt target DNAX-RAY DIFFRACTION3.42132
68KAI|1|I+ 8KAI|1|A+ 8KAI|1|C+ 8KAI|1|DCrystal structure of SpyCas9-crRNA-tracrRNA complex bound to 17nt target DNAX-RAY DIFFRACTION3.49133

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.

8KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H:8KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H = 08KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H:8KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H = 0.03398KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H:8KAI|1|J+8KAI|1|E+8KAI|1|G = 0.04208KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H:8KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D = 0.18378KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H:8KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D = 0.18148KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H:8KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D = 0.18898KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H:8KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H = 0.03398KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H:8KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H = 08KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H:8KAI|1|J+8KAI|1|E+8KAI|1|G = 0.03868KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H:8KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D = 0.18598KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H:8KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D = 0.18358KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H:8KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D = 0.19128KAI|1|J+8KAI|1|E+8KAI|1|G:8KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H = 0.04208KAI|1|J+8KAI|1|E+8KAI|1|G:8KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H = 0.03868KAI|1|J+8KAI|1|E+8KAI|1|G:8KAI|1|J+8KAI|1|E+8KAI|1|G = 08KAI|1|J+8KAI|1|E+8KAI|1|G:8KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D = 0.18338KAI|1|J+8KAI|1|E+8KAI|1|G:8KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D = 0.18178KAI|1|J+8KAI|1|E+8KAI|1|G:8KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D = 0.18868KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D:8KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H = 0.18378KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D:8KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H = 0.18598KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D:8KAI|1|J+8KAI|1|E+8KAI|1|G = 0.18338KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D:8KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D = 08KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D:8KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D = 0.03608KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D:8KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D = 0.04328KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D:8KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H = 0.18148KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D:8KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H = 0.18358KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D:8KAI|1|J+8KAI|1|E+8KAI|1|G = 0.18178KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D:8KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D = 0.03608KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D:8KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D = 08KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D:8KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D = 0.03578KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D:8KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H = 0.18898KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D:8KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H = 0.19128KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D:8KAI|1|J+8KAI|1|E+8KAI|1|G = 0.18868KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D:8KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D = 0.04328KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D:8KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D = 0.03578KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D:8KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|D = 08KAH|1|J+8KAH|1|E+8KAH|1|G+8KAH|1|H8KAJ|1|J+8KAJ|1|E+8KAJ|1|G+8KAJ|1|H8KAI|1|J+8KAI|1|E+8KAI|1|G8KAH|1|I+8KAH|1|A+8KAH|1|C+8KAH|1|D8KAJ|1|I+8KAJ|1|A+8KAJ|1|C+8KAJ|1|D8KAI|1|I+8KAI|1|A+8KAI|1|C+8KAI|1|DDiscrepancy0.000.050.100.15

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