RNA 3D Hub //

Equivalence class NR_3.5_25301.2 Current

Showing 1 to 7 of 7 entries
#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
18RDU|1|1+ 8RDU|1|3+ 8RDU|1|6+ 8RDU|1|4+ 8RDU|1|5+ 8RDU|1|2+ 8RDU|1|7 (rep)LE, Non-target strand - LE, Non-target strand - RE, RE, sgRNA, Target strand, Target strand -LEScytonema hofmanniiConformational Landscape of the Type V-K CRISPR-associated TransposonIntegration Assembly CAST V-K composite mapElectron microscopy2.35262024-06-19
28EA4|1|7+ 8EA4|1|1+ 8EA4|1|4+ 8EA4|1|3+ 8EA4|1|2+ 8EA4|1|5+ 8EA4|1|6LE_R, Non-target_R, RE_F, RE_R1, RE_R2, sg_RNA, Target-LEsynthetic constructV-K CAST Transpososome from Scytonema hofmanni, minor configurationElectron microscopy34952022-11-30
38RKT|1|1+ 8RKT|1|3+ 8RKT|1|2Non-target strand - LE, sgRNA, Target strand - LEScytonema hofmanniiConformational Landscape of the Type V-K CRISPR-associated TransposonIntegration Assembly CAST V-K Cas12k domain local-refinement mapElectron microscopy2.353122024-06-19
48BD5|1|B+ 8BD5|1|C+ 8BD5|1|DDNA non-target strand, DNA target strand, sgRNAScytonema hofmanniiCas12k-sgRNA-dsDNA-S15-TniQ-TnsC transposon recruitment complexElectron microscopy3.33282022-12-28
57PLA|1|B+ 7PLA|1|C+ 7PLA|1|DDNA non-target strand, DNA target strand, sgRNAScytonema hofmanniiCryo-EM structure of ShCas12k in complex with a sgRNA and a dsDNA targetElectron microscopy3.042442021-12-01
68AXA|1|B+ 8AXA|1|CDNA non-target strand, DNA target strand, sgRNAScytonema hofmanniiCryo-EM structure of shCas12k-sgRNA-dsDNA ternary complex (type V-K CRISPR-associated transposon)Electron microscopy2.962482024-04-10
78AXB|1|BsgRNAScytonema hofmanniiCryo-EM structure of Cas12k-sgRNA binary complex (type V-K CRISPR-associated transposon)Electron microscopy2.872302024-04-10

Release history

Release3.3823.3833.3843.3853.3863.3873.3883.3893.3903.3913.3923.393
Date2025-04-092025-04-162025-04-232025-04-302025-05-072025-05-142025-05-212025-05-282025-06-042025-06-112025-06-182025-06-25

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.

Showing 1 to 7 of 7 entries
#SViewPDBTitleMethodResolution#NTs
18RDU|1|1+ 8RDU|1|3+ 8RDU|1|6+ 8RDU|1|4+ 8RDU|1|5+ 8RDU|1|2+ 8RDU|1|7Conformational Landscape of the Type V-K CRISPR-associated TransposonIntegration Assembly CAST V-K composite mapELECTRON MICROSCOPY2.3526
28RKT|1|1+ 8RKT|1|3+ 8RKT|1|2Conformational Landscape of the Type V-K CRISPR-associated TransposonIntegration Assembly CAST V-K Cas12k domain local-refinement mapELECTRON MICROSCOPY2.35312
38EA4|1|7+ 8EA4|1|1+ 8EA4|1|4+ 8EA4|1|3+ 8EA4|1|2+ 8EA4|1|5+ 8EA4|1|6V-K CAST Transpososome from Scytonema hofmanni, minor configurationELECTRON MICROSCOPY3495
48BD5|1|B+ 8BD5|1|C+ 8BD5|1|DCas12k-sgRNA-dsDNA-S15-TniQ-TnsC transposon recruitment complexELECTRON MICROSCOPY3.3328
57PLA|1|B+ 7PLA|1|C+ 7PLA|1|DCryo-EM structure of ShCas12k in complex with a sgRNA and a dsDNA targetELECTRON MICROSCOPY3.04244
68AXA|1|B+ 8AXA|1|CCryo-EM structure of shCas12k-sgRNA-dsDNA ternary complex (type V-K CRISPR-associated transposon)ELECTRON MICROSCOPY2.96248
78AXB|1|BCryo-EM structure of Cas12k-sgRNA binary complex (type V-K CRISPR-associated transposon)ELECTRON MICROSCOPY2.87230

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.

8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7:8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7 = 08RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7:8RKT|1|1+8RKT|1|3+8RKT|1|2 = 0.00008RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7:8EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6 = 0.12008RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7:8BD5|1|B+8BD5|1|C+8BD5|1|D = 0.12808RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7:7PLA|1|B+7PLA|1|C+7PLA|1|D = 0.17328RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7:8AXA|1|B+8AXA|1|C = 0.17358RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7:8AXB|1|B = 0.18338RKT|1|1+8RKT|1|3+8RKT|1|2:8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7 = 0.00008RKT|1|1+8RKT|1|3+8RKT|1|2:8RKT|1|1+8RKT|1|3+8RKT|1|2 = 08RKT|1|1+8RKT|1|3+8RKT|1|2:8EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6 = 0.12008RKT|1|1+8RKT|1|3+8RKT|1|2:8BD5|1|B+8BD5|1|C+8BD5|1|D = 0.12808RKT|1|1+8RKT|1|3+8RKT|1|2:7PLA|1|B+7PLA|1|C+7PLA|1|D = 0.17328RKT|1|1+8RKT|1|3+8RKT|1|2:8AXA|1|B+8AXA|1|C = 0.17358RKT|1|1+8RKT|1|3+8RKT|1|2:8AXB|1|B = 0.18338EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6:8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7 = 0.12008EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6:8RKT|1|1+8RKT|1|3+8RKT|1|2 = 0.12008EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6:8EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6 = 08EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6:8BD5|1|B+8BD5|1|C+8BD5|1|D = 0.10878EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6:7PLA|1|B+7PLA|1|C+7PLA|1|D = 0.15278EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6:8AXA|1|B+8AXA|1|C = 0.21158EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6:8AXB|1|B = 0.20378BD5|1|B+8BD5|1|C+8BD5|1|D:8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7 = 0.12808BD5|1|B+8BD5|1|C+8BD5|1|D:8RKT|1|1+8RKT|1|3+8RKT|1|2 = 0.12808BD5|1|B+8BD5|1|C+8BD5|1|D:8EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6 = 0.10878BD5|1|B+8BD5|1|C+8BD5|1|D:8BD5|1|B+8BD5|1|C+8BD5|1|D = 08BD5|1|B+8BD5|1|C+8BD5|1|D:7PLA|1|B+7PLA|1|C+7PLA|1|D = 0.15528BD5|1|B+8BD5|1|C+8BD5|1|D:8AXA|1|B+8AXA|1|C = 0.21748BD5|1|B+8BD5|1|C+8BD5|1|D:8AXB|1|B = 0.21307PLA|1|B+7PLA|1|C+7PLA|1|D:8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7 = 0.17327PLA|1|B+7PLA|1|C+7PLA|1|D:8RKT|1|1+8RKT|1|3+8RKT|1|2 = 0.17327PLA|1|B+7PLA|1|C+7PLA|1|D:8EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6 = 0.15277PLA|1|B+7PLA|1|C+7PLA|1|D:8BD5|1|B+8BD5|1|C+8BD5|1|D = 0.15527PLA|1|B+7PLA|1|C+7PLA|1|D:7PLA|1|B+7PLA|1|C+7PLA|1|D = 07PLA|1|B+7PLA|1|C+7PLA|1|D:8AXA|1|B+8AXA|1|C = 0.14937PLA|1|B+7PLA|1|C+7PLA|1|D:8AXB|1|B = 0.17378AXA|1|B+8AXA|1|C:8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7 = 0.17358AXA|1|B+8AXA|1|C:8RKT|1|1+8RKT|1|3+8RKT|1|2 = 0.17358AXA|1|B+8AXA|1|C:8EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6 = 0.21158AXA|1|B+8AXA|1|C:8BD5|1|B+8BD5|1|C+8BD5|1|D = 0.21748AXA|1|B+8AXA|1|C:7PLA|1|B+7PLA|1|C+7PLA|1|D = 0.14938AXA|1|B+8AXA|1|C:8AXA|1|B+8AXA|1|C = 08AXA|1|B+8AXA|1|C:8AXB|1|B = 0.14178AXB|1|B:8RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|7 = 0.18338AXB|1|B:8RKT|1|1+8RKT|1|3+8RKT|1|2 = 0.18338AXB|1|B:8EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|6 = 0.20378AXB|1|B:8BD5|1|B+8BD5|1|C+8BD5|1|D = 0.21308AXB|1|B:7PLA|1|B+7PLA|1|C+7PLA|1|D = 0.17378AXB|1|B:8AXA|1|B+8AXA|1|C = 0.14178AXB|1|B:8AXB|1|B = 08RDU|1|1+8RDU|1|3+8RDU|1|6+8RDU|1|4+8RDU|1|5+8RDU|1|2+8RDU|1|78RKT|1|1+8RKT|1|3+8RKT|1|28EA4|1|7+8EA4|1|1+8EA4|1|4+8EA4|1|3+8EA4|1|2+8EA4|1|5+8EA4|1|68BD5|1|B+8BD5|1|C+8BD5|1|D7PLA|1|B+7PLA|1|C+7PLA|1|D8AXA|1|B+8AXA|1|C8AXB|1|BDiscrepancy0.000.050.100.150.20

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