RNA 3D Hub //

Equivalence class NR_2.5_78706.3 Current

Showing 1 to 12 of 12 entries
#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
11ZCI|1|A+ 1ZCI|1|B (rep)5'-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 diffraction1.65462006-01-31
21ZCI|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 diffraction1.65462006-01-31
32FD0|1|A+ 2FD0|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with lividomycinX-ray diffraction1.8462006-05-16
42FCZ|1|A+ 2FCZ|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with ribostamycinX-ray diffraction2.01462006-05-16
52FCZ|1|C+ 2FCZ|1|DHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with ribostamycinX-ray diffraction2.01462006-05-16
62FCY|1|A+ 2FCY|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with NeomycinX-ray diffraction2.2462006-05-16
71Y3S|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 diffraction2.25462005-11-08
82FCX|1|A+ 2FCX|1|BHIV-1 DIS RNAHIV-1 DIS kissing-loop in complex with neamineX-ray diffraction2462006-05-16
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 diffraction2.4462006-01-31
101XPE|1|A+ 1XPE|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 genomic RNA Dimerization Initiation SiteX-ray diffraction1.94462005-10-18
111XPF|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 diffraction2.3462005-10-18
121XP7|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 diffraction2.5462005-10-18

Release history

Release3.3783.3793.3803.3813.3823.3833.3843.3853.3863.3873.3883.3893.3903.3913.392
Date2025-03-132025-03-192025-03-262025-04-022025-04-092025-04-162025-04-232025-04-302025-05-072025-05-142025-05-212025-05-282025-06-042025-06-112025-06-18

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 12 of 12 entries
#SViewPDBTitleMethodResolution#NTs
12FCZ|1|A+ 2FCZ|1|BHIV-1 DIS kissing-loop in complex with ribostamycinX-RAY DIFFRACTION2.0146
22FD0|1|A+ 2FD0|1|BHIV-1 DIS kissing-loop in complex with lividomycinX-RAY DIFFRACTION1.846
32FCY|1|A+ 2FCY|1|BHIV-1 DIS kissing-loop in complex with NeomycinX-RAY DIFFRACTION2.246
42FCZ|1|C+ 2FCZ|1|DHIV-1 DIS kissing-loop in complex with ribostamycinX-RAY DIFFRACTION2.0146
52FCX|1|A+ 2FCX|1|BHIV-1 DIS kissing-loop in complex with neamineX-RAY DIFFRACTION246
61XPE|1|A+ 1XPE|1|BHIV-1 subtype B genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION1.9446
71XPF|1|A+ 1XPF|1|BHIV-1 subtype A genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.346
81YXP|1|A+ 1YXP|1|BHIV-1 DIS RNA subtype F- Zn soakedX-RAY DIFFRACTION2.446
91Y3S|1|A+ 1Y3S|1|BHIV-1 DIS RNA subtype F- MPD formX-RAY DIFFRACTION2.2546
101XP7|1|A+ 1XP7|1|BHIV-1 subtype F genomic RNA Dimerization Initiation SiteX-RAY DIFFRACTION2.546
111ZCI|1|A+ 1ZCI|1|BHIV-1 DIS RNA subtype F- monoclinic formX-RAY DIFFRACTION1.6546
121ZCI|1|C+ 1ZCI|1|DHIV-1 DIS RNA subtype F- monoclinic formX-RAY DIFFRACTION1.6546

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.

2FCZ|1|A+2FCZ|1|B:2FCZ|1|A+2FCZ|1|B = 02FCZ|1|A+2FCZ|1|B:2FD0|1|A+2FD0|1|B = 0.17622FCZ|1|A+2FCZ|1|B:2FCY|1|A+2FCY|1|B = 0.17452FCZ|1|A+2FCZ|1|B:2FCZ|1|C+2FCZ|1|D = 0.19192FCZ|1|A+2FCZ|1|B:2FCX|1|A+2FCX|1|B = 0.19112FCZ|1|A+2FCZ|1|B:1XPE|1|A+1XPE|1|B = 0.28432FCZ|1|A+2FCZ|1|B:1XPF|1|A+1XPF|1|B = 0.28722FCZ|1|A+2FCZ|1|B:1YXP|1|A+1YXP|1|B = 0.26762FCZ|1|A+2FCZ|1|B:1Y3S|1|A+1Y3S|1|B = 0.27072FCZ|1|A+2FCZ|1|B:1XP7|1|A+1XP7|1|B = 0.27522FCZ|1|A+2FCZ|1|B:1ZCI|1|A+1ZCI|1|B = 0.33052FCZ|1|A+2FCZ|1|B:1ZCI|1|C+1ZCI|1|D = 0.34412FD0|1|A+2FD0|1|B:2FCZ|1|A+2FCZ|1|B = 0.17622FD0|1|A+2FD0|1|B:2FD0|1|A+2FD0|1|B = 02FD0|1|A+2FD0|1|B:2FCY|1|A+2FCY|1|B = 0.07982FD0|1|A+2FD0|1|B:2FCZ|1|C+2FCZ|1|D = 0.14502FD0|1|A+2FD0|1|B:2FCX|1|A+2FCX|1|B = 0.14152FD0|1|A+2FD0|1|B:1XPE|1|A+1XPE|1|B = 0.25222FD0|1|A+2FD0|1|B:1XPF|1|A+1XPF|1|B = 0.23422FD0|1|A+2FD0|1|B:1YXP|1|A+1YXP|1|B = 0.23852FD0|1|A+2FD0|1|B:1Y3S|1|A+1Y3S|1|B = 0.25012FD0|1|A+2FD0|1|B:1XP7|1|A+1XP7|1|B = 0.22212FD0|1|A+2FD0|1|B:1ZCI|1|A+1ZCI|1|B = 0.27732FD0|1|A+2FD0|1|B:1ZCI|1|C+1ZCI|1|D = 0.28382FCY|1|A+2FCY|1|B:2FCZ|1|A+2FCZ|1|B = 0.17452FCY|1|A+2FCY|1|B:2FD0|1|A+2FD0|1|B = 0.07982FCY|1|A+2FCY|1|B:2FCY|1|A+2FCY|1|B = 02FCY|1|A+2FCY|1|B:2FCZ|1|C+2FCZ|1|D = 0.12082FCY|1|A+2FCY|1|B:2FCX|1|A+2FCX|1|B = 0.14742FCY|1|A+2FCY|1|B:1XPE|1|A+1XPE|1|B = 0.28202FCY|1|A+2FCY|1|B:1XPF|1|A+1XPF|1|B = 0.28712FCY|1|A+2FCY|1|B:1YXP|1|A+1YXP|1|B = 0.28382FCY|1|A+2FCY|1|B:1Y3S|1|A+1Y3S|1|B = 0.29682FCY|1|A+2FCY|1|B:1XP7|1|A+1XP7|1|B = 0.26772FCY|1|A+2FCY|1|B:1ZCI|1|A+1ZCI|1|B = 0.29932FCY|1|A+2FCY|1|B:1ZCI|1|C+1ZCI|1|D = 0.30642FCZ|1|C+2FCZ|1|D:2FCZ|1|A+2FCZ|1|B = 0.19192FCZ|1|C+2FCZ|1|D:2FD0|1|A+2FD0|1|B = 0.14502FCZ|1|C+2FCZ|1|D:2FCY|1|A+2FCY|1|B = 0.12082FCZ|1|C+2FCZ|1|D:2FCZ|1|C+2FCZ|1|D = 02FCZ|1|C+2FCZ|1|D:2FCX|1|A+2FCX|1|B = 0.09032FCZ|1|C+2FCZ|1|D:1XPE|1|A+1XPE|1|B = 0.26922FCZ|1|C+2FCZ|1|D:1XPF|1|A+1XPF|1|B = 0.30162FCZ|1|C+2FCZ|1|D:1YXP|1|A+1YXP|1|B = 0.29242FCZ|1|C+2FCZ|1|D:1Y3S|1|A+1Y3S|1|B = 0.30362FCZ|1|C+2FCZ|1|D:1XP7|1|A+1XP7|1|B = 0.27242FCZ|1|C+2FCZ|1|D:1ZCI|1|A+1ZCI|1|B = 0.30492FCZ|1|C+2FCZ|1|D:1ZCI|1|C+1ZCI|1|D = 0.31152FCX|1|A+2FCX|1|B:2FCZ|1|A+2FCZ|1|B = 0.19112FCX|1|A+2FCX|1|B:2FD0|1|A+2FD0|1|B = 0.14152FCX|1|A+2FCX|1|B:2FCY|1|A+2FCY|1|B = 0.14742FCX|1|A+2FCX|1|B:2FCZ|1|C+2FCZ|1|D = 0.09032FCX|1|A+2FCX|1|B:2FCX|1|A+2FCX|1|B = 02FCX|1|A+2FCX|1|B:1XPE|1|A+1XPE|1|B = 0.23402FCX|1|A+2FCX|1|B:1XPF|1|A+1XPF|1|B = 0.24682FCX|1|A+2FCX|1|B:1YXP|1|A+1YXP|1|B = 0.24152FCX|1|A+2FCX|1|B:1Y3S|1|A+1Y3S|1|B = 0.25482FCX|1|A+2FCX|1|B:1XP7|1|A+1XP7|1|B = 0.22282FCX|1|A+2FCX|1|B:1ZCI|1|A+1ZCI|1|B = 0.27682FCX|1|A+2FCX|1|B:1ZCI|1|C+1ZCI|1|D = 0.28251XPE|1|A+1XPE|1|B:2FCZ|1|A+2FCZ|1|B = 0.28431XPE|1|A+1XPE|1|B:2FD0|1|A+2FD0|1|B = 0.25221XPE|1|A+1XPE|1|B:2FCY|1|A+2FCY|1|B = 0.28201XPE|1|A+1XPE|1|B:2FCZ|1|C+2FCZ|1|D = 0.26921XPE|1|A+1XPE|1|B:2FCX|1|A+2FCX|1|B = 0.23401XPE|1|A+1XPE|1|B:1XPE|1|A+1XPE|1|B = 01XPE|1|A+1XPE|1|B:1XPF|1|A+1XPF|1|B = 0.16401XPE|1|A+1XPE|1|B:1YXP|1|A+1YXP|1|B = 0.13381XPE|1|A+1XPE|1|B:1Y3S|1|A+1Y3S|1|B = 0.13621XPE|1|A+1XPE|1|B:1XP7|1|A+1XP7|1|B = 0.13261XPE|1|A+1XPE|1|B:1ZCI|1|A+1ZCI|1|B = 0.20501XPE|1|A+1XPE|1|B:1ZCI|1|C+1ZCI|1|D = 0.20981XPF|1|A+1XPF|1|B:2FCZ|1|A+2FCZ|1|B = 0.28721XPF|1|A+1XPF|1|B:2FD0|1|A+2FD0|1|B = 0.23421XPF|1|A+1XPF|1|B:2FCY|1|A+2FCY|1|B = 0.28711XPF|1|A+1XPF|1|B:2FCZ|1|C+2FCZ|1|D = 0.30161XPF|1|A+1XPF|1|B:2FCX|1|A+2FCX|1|B = 0.24681XPF|1|A+1XPF|1|B:1XPE|1|A+1XPE|1|B = 0.16401XPF|1|A+1XPF|1|B:1XPF|1|A+1XPF|1|B = 01XPF|1|A+1XPF|1|B:1YXP|1|A+1YXP|1|B = 0.11621XPF|1|A+1XPF|1|B:1Y3S|1|A+1Y3S|1|B = 0.11721XPF|1|A+1XPF|1|B:1XP7|1|A+1XP7|1|B = 0.12801XPF|1|A+1XPF|1|B:1ZCI|1|A+1ZCI|1|B = 0.23411XPF|1|A+1XPF|1|B:1ZCI|1|C+1ZCI|1|D = 0.23521YXP|1|A+1YXP|1|B:2FCZ|1|A+2FCZ|1|B = 0.26761YXP|1|A+1YXP|1|B:2FD0|1|A+2FD0|1|B = 0.23851YXP|1|A+1YXP|1|B:2FCY|1|A+2FCY|1|B = 0.28381YXP|1|A+1YXP|1|B:2FCZ|1|C+2FCZ|1|D = 0.29241YXP|1|A+1YXP|1|B:2FCX|1|A+2FCX|1|B = 0.24151YXP|1|A+1YXP|1|B:1XPE|1|A+1XPE|1|B = 0.13381YXP|1|A+1YXP|1|B:1XPF|1|A+1XPF|1|B = 0.11621YXP|1|A+1YXP|1|B:1YXP|1|A+1YXP|1|B = 01YXP|1|A+1YXP|1|B:1Y3S|1|A+1Y3S|1|B = 0.05851YXP|1|A+1YXP|1|B:1XP7|1|A+1XP7|1|B = 0.10351YXP|1|A+1YXP|1|B:1ZCI|1|A+1ZCI|1|B = 0.21771YXP|1|A+1YXP|1|B:1ZCI|1|C+1ZCI|1|D = 0.22291Y3S|1|A+1Y3S|1|B:2FCZ|1|A+2FCZ|1|B = 0.27071Y3S|1|A+1Y3S|1|B:2FD0|1|A+2FD0|1|B = 0.25011Y3S|1|A+1Y3S|1|B:2FCY|1|A+2FCY|1|B = 0.29681Y3S|1|A+1Y3S|1|B:2FCZ|1|C+2FCZ|1|D = 0.30361Y3S|1|A+1Y3S|1|B:2FCX|1|A+2FCX|1|B = 0.25481Y3S|1|A+1Y3S|1|B:1XPE|1|A+1XPE|1|B = 0.13621Y3S|1|A+1Y3S|1|B:1XPF|1|A+1XPF|1|B = 0.11721Y3S|1|A+1Y3S|1|B:1YXP|1|A+1YXP|1|B = 0.05851Y3S|1|A+1Y3S|1|B:1Y3S|1|A+1Y3S|1|B = 01Y3S|1|A+1Y3S|1|B:1XP7|1|A+1XP7|1|B = 0.09381Y3S|1|A+1Y3S|1|B:1ZCI|1|A+1ZCI|1|B = 0.20931Y3S|1|A+1Y3S|1|B:1ZCI|1|C+1ZCI|1|D = 0.21491XP7|1|A+1XP7|1|B:2FCZ|1|A+2FCZ|1|B = 0.27521XP7|1|A+1XP7|1|B:2FD0|1|A+2FD0|1|B = 0.22211XP7|1|A+1XP7|1|B:2FCY|1|A+2FCY|1|B = 0.26771XP7|1|A+1XP7|1|B:2FCZ|1|C+2FCZ|1|D = 0.27241XP7|1|A+1XP7|1|B:2FCX|1|A+2FCX|1|B = 0.22281XP7|1|A+1XP7|1|B:1XPE|1|A+1XPE|1|B = 0.13261XP7|1|A+1XP7|1|B:1XPF|1|A+1XPF|1|B = 0.12801XP7|1|A+1XP7|1|B:1YXP|1|A+1YXP|1|B = 0.10351XP7|1|A+1XP7|1|B:1Y3S|1|A+1Y3S|1|B = 0.09381XP7|1|A+1XP7|1|B:1XP7|1|A+1XP7|1|B = 01XP7|1|A+1XP7|1|B:1ZCI|1|A+1ZCI|1|B = 0.17351XP7|1|A+1XP7|1|B:1ZCI|1|C+1ZCI|1|D = 0.17711ZCI|1|A+1ZCI|1|B:2FCZ|1|A+2FCZ|1|B = 0.33051ZCI|1|A+1ZCI|1|B:2FD0|1|A+2FD0|1|B = 0.27731ZCI|1|A+1ZCI|1|B:2FCY|1|A+2FCY|1|B = 0.29931ZCI|1|A+1ZCI|1|B:2FCZ|1|C+2FCZ|1|D = 0.30491ZCI|1|A+1ZCI|1|B:2FCX|1|A+2FCX|1|B = 0.27681ZCI|1|A+1ZCI|1|B:1XPE|1|A+1XPE|1|B = 0.20501ZCI|1|A+1ZCI|1|B:1XPF|1|A+1XPF|1|B = 0.23411ZCI|1|A+1ZCI|1|B:1YXP|1|A+1YXP|1|B = 0.21771ZCI|1|A+1ZCI|1|B:1Y3S|1|A+1Y3S|1|B = 0.20931ZCI|1|A+1ZCI|1|B:1XP7|1|A+1XP7|1|B = 0.17351ZCI|1|A+1ZCI|1|B:1ZCI|1|A+1ZCI|1|B = 01ZCI|1|A+1ZCI|1|B:1ZCI|1|C+1ZCI|1|D = 0.02451ZCI|1|C+1ZCI|1|D:2FCZ|1|A+2FCZ|1|B = 0.34411ZCI|1|C+1ZCI|1|D:2FD0|1|A+2FD0|1|B = 0.28381ZCI|1|C+1ZCI|1|D:2FCY|1|A+2FCY|1|B = 0.30641ZCI|1|C+1ZCI|1|D:2FCZ|1|C+2FCZ|1|D = 0.31151ZCI|1|C+1ZCI|1|D:2FCX|1|A+2FCX|1|B = 0.28251ZCI|1|C+1ZCI|1|D:1XPE|1|A+1XPE|1|B = 0.20981ZCI|1|C+1ZCI|1|D:1XPF|1|A+1XPF|1|B = 0.23521ZCI|1|C+1ZCI|1|D:1YXP|1|A+1YXP|1|B = 0.22291ZCI|1|C+1ZCI|1|D:1Y3S|1|A+1Y3S|1|B = 0.21491ZCI|1|C+1ZCI|1|D:1XP7|1|A+1XP7|1|B = 0.17711ZCI|1|C+1ZCI|1|D:1ZCI|1|A+1ZCI|1|B = 0.02451ZCI|1|C+1ZCI|1|D:1ZCI|1|C+1ZCI|1|D = 02FCZ|1|A+2FCZ|1|B2FD0|1|A+2FD0|1|B2FCY|1|A+2FCY|1|B2FCZ|1|C+2FCZ|1|D2FCX|1|A+2FCX|1|B1XPE|1|A+1XPE|1|B1XPF|1|A+1XPF|1|B1YXP|1|A+1YXP|1|B1Y3S|1|A+1Y3S|1|B1XP7|1|A+1XP7|1|B1ZCI|1|A+1ZCI|1|B1ZCI|1|C+1ZCI|1|DDiscrepancy0.000.050.100.150.200.250.30

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