RNA 3D Hub //

Equivalence class NR_4.0_59443.1 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
11XPE|1|A+ 1XPE|1|B (rep)5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*G)-3'HIV-1 subtype B genomic RNA Dimerization Initiation SiteX-ray diffraction1.942005-10-18
21XPF|1|A+ 1XPF|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 subtype A genomic RNA Dimerization Initiation SiteX-ray diffraction2.32005-10-18
32B8R|1|A+ 2B8R|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*G)-3'Structure oF HIV-1(LAI) genomic RNA DISX-ray diffraction2.62005-10-25
41XP7|1|A+ 1XP7|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 subtype F genomic RNA Dimerization Initiation SiteX-ray diffraction2.52005-10-18
52B8S|1|A+ 2B8S|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'Structure of HIV-1(MAL) genomic RNA DISX-ray diffraction2.762005-10-25
61Y3O|1|A+ 1Y3O|1|B5'-R(*CP*UP*(5BU)P*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 DIS RNA subtype F- Mn soakedX-ray diffraction2.72005-11-08
72FCY|1|A+ 2FCY|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with NeomycinX-ray diffraction2.22006-05-16
81ZCI|1|A+ 1ZCI|1|B5'-R(*CP*(5BU)P*UP*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 DIS RNA subtype F- monoclinic formX-ray diffraction1.652006-01-31
92FCX|1|A+ 2FCX|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with neamineX-ray diffraction22006-05-16
101Y3S|1|A+ 1Y3S|1|B5'-R(*CP*UP*(5BU)P*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 DIS RNA subtype F- MPD formX-ray diffraction2.252005-11-08
112FCZ|1|A+ 2FCZ|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with ribostamycinX-ray diffraction2.012006-05-16
121YXP|1|A+ 1YXP|1|B5'-R(*CP*UP*(5BU)P*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 DIS RNA subtype F- Zn soakedX-ray diffraction2.42006-01-31
132FD0|1|A+ 2FD0|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with lividomycinX-ray diffraction1.82006-05-16
141ZCI|1|C+ 1ZCI|1|D5'-R(*CP*(5BU)P*UP*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 DIS RNA subtype F- monoclinic formX-ray diffraction1.652006-01-31
152FCZ|1|C+ 2FCZ|1|DHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with ribostamycinX-ray diffraction2.012006-05-16
161K9W|1|BHIV-1 DIS(Mal)UU RNAHIV-1(MAL) RNA Dimerization Initiation SiteX-ray diffraction3.12001-11-30
171K9W|1|DHIV-1 DIS(Mal)UU RNAHIV-1(MAL) RNA Dimerization Initiation SiteX-ray diffraction3.12001-11-30
181Y99|1|A+ 1Y99|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 subtype A DIS RNA duplexX-ray diffraction2.42004-12-21
191O3Z|1|B+ 1O3Z|1|AHIV-1 DIS(MAL) GENOMIC RNAHIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKEDX-ray diffraction2.652003-05-27
201Y73|1|B+ 1Y73|1|A5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 Dis(Mal) Duplex Pt-SoakedX-ray diffraction2.92004-12-21
211Y95|1|B+ 1Y95|1|A5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 Dis(Mal) Duplex Pb-SoakedX-ray diffraction2.82004-12-21
221Y6T|1|B+ 1Y6T|1|A5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 Dis(Mal) Duplex Co Hexamine-SoakedX-ray diffraction2.62004-12-21
231NLC|1|B+ 1NLC|1|AHIV-1 DIS(MAL) genomic RNAHIV-1 DIS(Mal) duplex Zn-soakedX-ray diffraction1.852003-05-13
241Y6S|1|B+ 1Y6S|1|A5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 DIS(Mal) duplex Ba-soakedX-ray diffraction2.92004-12-21
251WVD|1|B+ 1WVD|1|A5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 Dis(Mal) Duplex CoCl2-SoakedX-ray diffraction2.932004-12-21
26462D|1|B+ 462D|1|ARNA (5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G) -3')CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITEX-ray diffraction2.31999-12-02
271Y90|1|B+ 1Y90|1|A5'-R(*CP*(5BU)P*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'HIV-1 Dis(Mal) Duplex Mn-SoakedX-ray diffraction3.082004-12-21
282OJ0|1|A+ 2OJ0|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*G)-3'Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation site MN soakedX-ray diffraction2.62007-12-25
292OIY|1|A+ 2OIY|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*G)-3'Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation siteX-ray diffraction1.62007-12-25
302OIJ|1|A+ 2OIJ|1|B5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*G)-3'HIV-1 subtype B DIS RNA extended duplex AuCl3 soakedX-ray diffraction2.312007-02-13
313C44|1|A+ 3C44|1|BHIV-1 subtype F genomic RNACrystal structure of HIV-1 subtype F DIS extended duplex RNA bound to paromomycinX-ray diffraction22008-05-06
322QEK|1|A+ 2QEK|1|BHIV-1 subtype F DIS genomic RNAHIV-1 subtype F DIS RNA extended duplex formX-ray diffraction1.82008-05-06
333FAR|1|A+ 3FAR|1|BRNA (5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*G)-3')Cation-dependent self-cleavage activity in the duplex form of the subtype-B HIV-1 RNA Dimerization Initiation SiteX-ray diffraction2.42009-11-24
341K9W|1|CHIV-1 DIS(Mal)UU RNAHIV-1(MAL) RNA Dimerization Initiation SiteX-ray diffraction3.12001-11-30
353DVV|1|A+ 3DVV|1|BHIV-1 genomic RNACrystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin (U267OMe)X-ray diffraction22008-08-12

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).
#SPDBTitleMethodResolutionLengthNAKB_NA_annotationNAKB_protein_annotation
11K9W|1|BTitle: HIV-1(MAL) RNA Dimerization Initiation SiteX-RAY DIFFRACTION3.123
22FCX|1|A+2FCX|1|BTitle: HIV-1 DIS kissing-loop in complex with neamineX-RAY DIFFRACTION222
32FCZ|1|C+2FCZ|1|DTitle: HIV-1 DIS kissing-loop in complex with ribostamycinX-RAY DIFFRACTION2.0122
42FCY|1|A+2FCY|1|BTitle: HIV-1 DIS kissing-loop in complex with NeomycinX-RAY DIFFRACTION2.222
52FD0|1|A+2FD0|1|BTitle: HIV-1 DIS kissing-loop in complex with lividomycinX-RAY DIFFRACTION1.822
62FCZ|1|A+2FCZ|1|BTitle: HIV-1 DIS kissing-loop in complex with ribostamycinX-RAY DIFFRACTION2.0122
71XPF|1|A+1XPF|1|BTitle: HIV-1 subtype A genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.323
82B8R|1|A+2B8R|1|BTitle: Structure oF HIV-1(LAI) genomic RNA DISX-RAY DIFFRACTION2.623
91XPE|1|A+1XPE|1|BTitle: HIV-1 subtype B genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION1.9423
102B8S|1|A+2B8S|1|BTitle: Structure of HIV-1(MAL) genomic RNA DISX-RAY DIFFRACTION2.7623
111YXP|1|A+1YXP|1|BTitle: HIV-1 DIS RNA subtype F- Zn soakedX-RAY DIFFRACTION2.422
121Y3S|1|A+1Y3S|1|BTitle: HIV-1 DIS RNA subtype F- MPD formX-RAY DIFFRACTION2.2522
131Y3O|1|A+1Y3O|1|BTitle: HIV-1 DIS RNA subtype F- Mn soakedX-RAY DIFFRACTION2.722
141XP7|1|A+1XP7|1|BTitle: HIV-1 subtype F genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.523
151ZCI|1|A+1ZCI|1|BTitle: HIV-1 DIS RNA subtype F- monoclinic formX-RAY DIFFRACTION1.6522
161ZCI|1|C+1ZCI|1|DTitle: HIV-1 DIS RNA subtype F- monoclinic formX-RAY DIFFRACTION1.6522
171K9W|1|DTitle: HIV-1(MAL) RNA Dimerization Initiation SiteX-RAY DIFFRACTION3.123
182QEK|1|A+2QEK|1|BTitle: HIV-1 subtype F DIS RNA extended duplex formX-RAY DIFFRACTION1.823
192OJ0|1|A+2OJ0|1|BTitle: Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation site MN soakedX-RAY DIFFRACTION2.623
202OIJ|1|A+2OIJ|1|BTitle: HIV-1 subtype B DIS RNA extended duplex AuCl3 soakedX-RAY DIFFRACTION2.3123
212OIY|1|A+2OIY|1|BTitle: Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation siteX-RAY DIFFRACTION1.623
223FAR|1|A+3FAR|1|BTitle: Cation-dependent self-cleavage activity in the duplex form of the subtype-B HIV-1 RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.423
233C44|1|A+3C44|1|BTitle: Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to paromomycinX-RAY DIFFRACTION223
243DVV|1|A+3DVV|1|BTitle: Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin (U267OMe)X-RAY DIFFRACTION222
251Y99|1|A+1Y99|1|BTitle: HIV-1 subtype A DIS RNA duplexX-RAY DIFFRACTION2.426
261Y6T|1|B+1Y6T|1|ATitle: HIV-1 Dis(Mal) Duplex Co Hexamine-SoakedX-RAY DIFFRACTION2.626
271WVD|1|B+1WVD|1|ATitle: HIV-1 Dis(Mal) Duplex CoCl2-SoakedX-RAY DIFFRACTION2.9326
281NLC|1|B+1NLC|1|ATitle: HIV-1 DIS(Mal) duplex Zn-soakedX-RAY DIFFRACTION1.8526
291O3Z|1|B+1O3Z|1|ATitle: HIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKEDX-RAY DIFFRACTION2.6526
30462D|1|B+462D|1|ATitle: CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITEX-RAY DIFFRACTION2.326
311Y90|1|B+1Y90|1|ATitle: HIV-1 Dis(Mal) Duplex Mn-SoakedX-RAY DIFFRACTION3.0825
321Y6S|1|B+1Y6S|1|ATitle: HIV-1 DIS(Mal) duplex Ba-soakedX-RAY DIFFRACTION2.926
331Y73|1|B+1Y73|1|ATitle: HIV-1 Dis(Mal) Duplex Pt-SoakedX-RAY DIFFRACTION2.926
341Y95|1|B+1Y95|1|ATitle: HIV-1 Dis(Mal) Duplex Pb-SoakedX-RAY DIFFRACTION2.826
351K9W|1|CTitle: HIV-1(MAL) RNA Dimerization Initiation SiteX-RAY DIFFRACTION3.123

Coloring options:

Copyright 2024 BGSU RNA group. Page generated in 0.1365 s