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Equivalence class NR_4.0_41479.1 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
21XP7|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
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
41XPF|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
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
62FD0|1|A+ 2FD0|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with lividomycinX-ray diffraction1.82006-05-16
71Y3O|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
81Y3S|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
91YXP|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
102FCY|1|A+ 2FCY|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with NeomycinX-ray diffraction2.22006-05-16
111ZCI|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
122FCX|1|A+ 2FCX|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with neamineX-ray diffraction22006-05-16
132FCZ|1|A+ 2FCZ|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with ribostamycinX-ray diffraction2.012006-05-16
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
171Y99|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 subtype A DIS RNA duplexX-ray diffraction2.42004-12-21
181WVD|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 Dis(Mal) Duplex CoCl2-SoakedX-ray diffraction2.932004-12-21
191Y6T|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 Dis(Mal) Duplex Co Hexamine-SoakedX-ray diffraction2.62004-12-21
20462D|1|BRNA (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
211Y6S|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 DIS(Mal) duplex Ba-soakedX-ray diffraction2.92004-12-21
221O3Z|1|BHIV-1 DIS(MAL) GENOMIC RNAHIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKEDX-ray diffraction2.652003-05-27
231NLC|1|BHIV-1 DIS(MAL) genomic RNAHIV-1 DIS(Mal) duplex Zn-soakedX-ray diffraction1.852003-05-13
241Y73|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 Dis(Mal) Duplex Pt-SoakedX-ray diffraction2.92004-12-21
251Y95|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 Dis(Mal) Duplex Pb-SoakedX-ray diffraction2.82004-12-21
261Y90|1|B5'-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
272OIJ|1|A5'-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
283C44|1|AHIV-1 subtype F genomic RNACrystal structure of HIV-1 subtype F DIS extended duplex RNA bound to paromomycinX-ray diffraction22008-05-06
292OIY|1|A5'-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
301WVD|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
311Y6T|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
32462D|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
332QEK|1|AHIV-1 subtype F DIS genomic RNAHIV-1 subtype F DIS RNA extended duplex formX-ray diffraction1.82008-05-06
341Y6S|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
351O3Z|1|AHIV-1 DIS(MAL) GENOMIC RNAHIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKEDX-ray diffraction2.652003-05-27
361NLC|1|AHIV-1 DIS(MAL) genomic RNAHIV-1 DIS(Mal) duplex Zn-soakedX-ray diffraction1.852003-05-13
372OJ0|1|A5'-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
383FAR|1|ARNA (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
391Y73|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
401Y95|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
411K9W|1|CHIV-1 DIS(Mal)UU RNAHIV-1(MAL) RNA Dimerization Initiation SiteX-ray diffraction3.12001-11-30
421K9W|1|DHIV-1 DIS(Mal)UU RNAHIV-1(MAL) RNA Dimerization Initiation SiteX-ray diffraction3.12001-11-30
431Y90|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
443DVV|1|AHIV-1 genomic RNACrystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin (U267OMe)X-ray diffraction22008-08-12

Release history

Release2.0
Date2014-12-05

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

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|DTitle: HIV-1(MAL) RNA Dimerization Initiation SiteX-RAY DIFFRACTION3.123
21ZCI|1|C+1ZCI|1|DTitle: HIV-1 DIS RNA subtype F- monoclinic formX-RAY DIFFRACTION1.6522
31ZCI|1|A+1ZCI|1|BTitle: HIV-1 DIS RNA subtype F- monoclinic formX-RAY DIFFRACTION1.6522
41XPE|1|A+1XPE|1|BTitle: HIV-1 subtype B genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION1.9423
52B8R|1|A+2B8R|1|BTitle: Structure oF HIV-1(LAI) genomic RNA DISX-RAY DIFFRACTION2.623
61XPF|1|A+1XPF|1|BTitle: HIV-1 subtype A genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.323
71YXP|1|A+1YXP|1|BTitle: HIV-1 DIS RNA subtype F- Zn soakedX-RAY DIFFRACTION2.422
81Y3S|1|A+1Y3S|1|BTitle: HIV-1 DIS RNA subtype F- MPD formX-RAY DIFFRACTION2.2522
91Y3O|1|A+1Y3O|1|BTitle: HIV-1 DIS RNA subtype F- Mn soakedX-RAY DIFFRACTION2.722
101XP7|1|A+1XP7|1|BTitle: HIV-1 subtype F genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.523
112B8S|1|A+2B8S|1|BTitle: Structure of HIV-1(MAL) genomic RNA DISX-RAY DIFFRACTION2.7623
122FCZ|1|A+2FCZ|1|BTitle: HIV-1 DIS kissing-loop in complex with ribostamycinX-RAY DIFFRACTION2.0122
132FCX|1|A+2FCX|1|BTitle: HIV-1 DIS kissing-loop in complex with neamineX-RAY DIFFRACTION222
142FCZ|1|C+2FCZ|1|DTitle: HIV-1 DIS kissing-loop in complex with ribostamycinX-RAY DIFFRACTION2.0122
152FCY|1|A+2FCY|1|BTitle: HIV-1 DIS kissing-loop in complex with NeomycinX-RAY DIFFRACTION2.222
162FD0|1|A+2FD0|1|BTitle: HIV-1 DIS kissing-loop in complex with lividomycinX-RAY DIFFRACTION1.822
171K9W|1|BTitle: HIV-1(MAL) RNA Dimerization Initiation SiteX-RAY DIFFRACTION3.123
182QEK|1|ATitle: HIV-1 subtype F DIS RNA extended duplex formX-RAY DIFFRACTION1.823
193DVV|1|ATitle: Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin (U267OMe)X-RAY DIFFRACTION222
203C44|1|ATitle: Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to paromomycinX-RAY DIFFRACTION223
212OIJ|1|ATitle: HIV-1 subtype B DIS RNA extended duplex AuCl3 soakedX-RAY DIFFRACTION2.3123
222OIY|1|ATitle: Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation siteX-RAY DIFFRACTION1.623
233FAR|1|ATitle: Cation-dependent self-cleavage activity in the duplex form of the subtype-B HIV-1 RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.423
242OJ0|1|ATitle: Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation site MN soakedX-RAY DIFFRACTION2.623
251Y90|1|ATitle: HIV-1 Dis(Mal) Duplex Mn-SoakedX-RAY DIFFRACTION3.0822
261Y95|1|ATitle: HIV-1 Dis(Mal) Duplex Pb-SoakedX-RAY DIFFRACTION2.823
271Y6S|1|BTitle: HIV-1 DIS(Mal) duplex Ba-soakedX-RAY DIFFRACTION2.926
281Y6T|1|ATitle: HIV-1 Dis(Mal) Duplex Co Hexamine-SoakedX-RAY DIFFRACTION2.623
291O3Z|1|ATitle: HIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKEDX-RAY DIFFRACTION2.6523
301Y73|1|ATitle: HIV-1 Dis(Mal) Duplex Pt-SoakedX-RAY DIFFRACTION2.923
311NLC|1|ATitle: HIV-1 DIS(Mal) duplex Zn-soakedX-RAY DIFFRACTION1.8523
321WVD|1|ATitle: HIV-1 Dis(Mal) Duplex CoCl2-SoakedX-RAY DIFFRACTION2.9323
331NLC|1|BTitle: HIV-1 DIS(Mal) duplex Zn-soakedX-RAY DIFFRACTION1.8526
341Y95|1|BTitle: HIV-1 Dis(Mal) Duplex Pb-SoakedX-RAY DIFFRACTION2.826
351Y99|1|ATitle: HIV-1 subtype A DIS RNA duplexX-RAY DIFFRACTION2.426
361Y6T|1|BTitle: HIV-1 Dis(Mal) Duplex Co Hexamine-SoakedX-RAY DIFFRACTION2.626
371Y73|1|BTitle: HIV-1 Dis(Mal) Duplex Pt-SoakedX-RAY DIFFRACTION2.926
381WVD|1|BTitle: HIV-1 Dis(Mal) Duplex CoCl2-SoakedX-RAY DIFFRACTION2.9326
391Y90|1|BTitle: HIV-1 Dis(Mal) Duplex Mn-SoakedX-RAY DIFFRACTION3.0825
40462D|1|BTitle: CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITEX-RAY DIFFRACTION2.326
411O3Z|1|BTitle: HIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKEDX-RAY DIFFRACTION2.6526
42462D|1|ATitle: CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITEX-RAY DIFFRACTION2.323
431Y6S|1|ATitle: HIV-1 DIS(Mal) duplex Ba-soakedX-RAY DIFFRACTION2.923
441K9W|1|CTitle: HIV-1(MAL) RNA Dimerization Initiation SiteX-RAY DIFFRACTION3.123

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