Equivalence class NR_4.0_60167.4 Current
| # | IFE | Compound(s) | RNA source organism | Title | Method | Resolution | Date |
|---|---|---|---|---|---|---|---|
| 1 | 3C3Z|1|A+ 3C3Z|1|B (rep) | HIV-1 subtype F genomic RNA | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin | X-RAY DIFFRACTION | 1.5 | 2008-05-06 | |
| 2 | 1Y99|1|A+ 1Y99|1|B | 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' | HIV-1 subtype A DIS RNA duplex | X-RAY DIFFRACTION | 2.4 | 2004-12-21 | |
| 3 | 1O3Z|1|B+ 1O3Z|1|A | HIV-1 DIS(MAL) GENOMIC RNA | HIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKED | X-RAY DIFFRACTION | 2.65 | 2003-05-27 | |
| 4 | 1Y73|1|B+ 1Y73|1|A | 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' | HIV-1 Dis(Mal) Duplex Pt-Soaked | X-RAY DIFFRACTION | 2.9 | 2004-12-21 | |
| 5 | 1Y95|1|B+ 1Y95|1|A | 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' | HIV-1 Dis(Mal) Duplex Pb-Soaked | X-RAY DIFFRACTION | 2.8 | 2004-12-21 | |
| 6 | 1Y6T|1|B+ 1Y6T|1|A | 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' | HIV-1 Dis(Mal) Duplex Co Hexamine-Soaked | X-RAY DIFFRACTION | 2.6 | 2004-12-21 | |
| 7 | 1NLC|1|B+ 1NLC|1|A | HIV-1 DIS(MAL) genomic RNA | HIV-1 DIS(Mal) duplex Zn-soaked | X-RAY DIFFRACTION | 1.85 | 2003-05-13 | |
| 8 | 1WVD|1|B+ 1WVD|1|A | 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' | HIV-1 Dis(Mal) Duplex CoCl2-Soaked | X-RAY DIFFRACTION | 2.93 | 2004-12-21 | |
| 9 | 1Y6S|1|B+ 1Y6S|1|A | 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' | HIV-1 DIS(Mal) duplex Ba-soaked | X-RAY DIFFRACTION | 2.9 | 2004-12-21 | |
| 10 | 462D|1|B+ 462D|1|A | RNA (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 SITE | X-RAY DIFFRACTION | 2.3 | 1999-12-02 | |
| 11 | 1Y90|1|B+ 1Y90|1|A | 5'-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-Soaked | X-RAY DIFFRACTION | 3.08 | 2004-12-21 | |
| 12 | 2OIJ|1|A+ 2OIJ|1|B | 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 DIS RNA extended duplex AuCl3 soaked | X-RAY DIFFRACTION | 2.31 | 2007-02-13 | |
| 13 | 2QEK|1|A+ 2QEK|1|B | HIV-1 subtype F DIS genomic RNA | HIV-1 subtype F DIS RNA extended duplex form | X-RAY DIFFRACTION | 1.8 | 2008-05-06 | |
| 14 | 3FAR|1|A+ 3FAR|1|B | RNA (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 Site | X-RAY DIFFRACTION | 2.4 | 2009-11-24 | |
| 15 | 2OJ0|1|A+ 2OJ0|1|B | 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' | Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation site MN soaked | X-RAY DIFFRACTION | 2.6 | 2007-12-25 | |
| 16 | 2OIY|1|A+ 2OIY|1|B | 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' | Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation site | X-RAY DIFFRACTION | 1.6 | 2007-12-25 | |
| 17 | 3C44|1|A+ 3C44|1|B | HIV-1 subtype F genomic RNA | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to paromomycin | X-RAY DIFFRACTION | 2 | 2008-05-06 | |
| 18 | 3DVV|1|A+ 3DVV|1|B | HIV-1 genomic RNA | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin (U267OMe) | X-RAY DIFFRACTION | 2 | 2008-08-12 | |
| 19 | 3C7R|1|A+ 3C7R|1|B | HIV-1 subtype F genomic RNA | Crystal Structure of HIV-1 subtype F DIS extended duplex RNA bound to neomycin | X-RAY DIFFRACTION | 1.7 | 2008-05-06 | |
| 20 | 3C5D|1|A+ 3C5D|1|B | 'HIV-1 subtype F genomic RNA | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to lividomycin | X-RAY DIFFRACTION | 1.8 | 2008-05-06 |
Release history
| Release | 2.153 | 2.154 | 2.155 | 2.156 | 2.157 | 2.158 | 3.0 | 3.1 | 3.2 | 3.3 | 3.4 | 3.5 | 3.6 | 3.7 | 3.8 | 3.9 | 3.10 | 3.11 | 3.12 | 3.13 | 3.14 | 3.15 | 3.16 | 3.17 | 3.18 | 3.19 | 3.20 | 3.21 | 3.22 | 3.23 | 3.24 | 3.25 | 3.26 | 3.27 | 3.28 | 3.29 | 3.30 | 3.31 | 3.32 | 3.33 | 3.34 | 3.35 | 3.36 | 3.37 | 3.38 | 3.39 | 3.40 | 3.41 | 3.42 | 3.43 | 3.44 | 3.45 | 3.46 | 3.47 | 3.48 | 3.49 | 3.50 | 3.51 | 3.52 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2017-11-03 | 2017-11-10 | 2017-11-17 | 2017-11-24 | 2017-12-01 | 2017-12-08 | 2017-12-15 | 2017-12-22 | 2017-12-29 | 2018-01-05 | 2018-01-12 | 2018-01-19 | 2018-01-26 | 2018-02-02 | 2018-02-09 | 2018-02-16 | 2018-02-23 | 2018-03-01 | 2018-03-08 | 2018-03-15 | 2018-03-22 | 2018-03-29 | 2018-04-06 | 2018-04-13 | 2018-04-20 | 2018-04-27 | 2018-05-04 | 2018-05-11 | 2018-05-18 | 2018-05-25 | 2018-06-01 | 2018-06-08 | 2018-06-15 | 2018-06-22 | 2018-06-29 | 2018-07-06 | 2018-07-13 | 2018-07-20 | 2018-07-27 | 2018-08-03 | 2018-08-10 | 2018-08-17 | 2018-08-24 | 2018-08-31 | 2018-09-07 | 2018-09-14 | 2018-09-21 | 2018-09-28 | 2018-10-05 | 2018-10-12 | 2018-10-19 | 2018-10-26 | 2018-11-02 | 2018-11-09 | 2018-11-16 | 2018-11-23 | 2018-11-30 | 2018-12-07 | 2018-12-14 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_60167.4 | NR_4.0_60167.3 | 2.153 | (17) 2OIY|1|A+2OIY|1|B, 2OIJ|1|A+2OIJ|1|B, 1Y99|1|A+1Y99|1|B, 1Y95|1|B+1Y95|1|A, 1Y90|1|B+1Y90|1|A, 462D|1|B+462D|1|A, 1Y73|1|B+1Y73|1|A, 3FAR|1|A+3FAR|1|B, 1Y6T|1|B+1Y6T|1|A, 3DVV|1|A+3DVV|1|B, 1Y6S|1|B+1Y6S|1|A, 3C44|1|A+3C44|1|B, 1WVD|1|B+1WVD|1|A, 2QEK|1|A+2QEK|1|B, 1O3Z|1|B+1O3Z|1|A, 2OJ0|1|A+2OJ0|1|B, 1NLC|1|B+1NLC|1|A | (3) 3C3Z|1|A+3C3Z|1|B, 3C7R|1|A+3C7R|1|B, 3C5D|1|A+3C5D|1|B | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added 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).| #S | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|
| 1 | 3DVV|1|A+3DVV|1|B | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin (U267OMe) | X-RAY DIFFRACTION | 2 | 22 |
| 2 | 3C3Z|1|A+3C3Z|1|B | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin | X-RAY DIFFRACTION | 1.5 | 22 |
| 3 | 3C7R|1|A+3C7R|1|B | Crystal Structure of HIV-1 subtype F DIS extended duplex RNA bound to neomycin | X-RAY DIFFRACTION | 1.7 | 22 |
| 4 | 3C5D|1|A+3C5D|1|B | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to lividomycin | X-RAY DIFFRACTION | 1.8 | 22 |
| 5 | 3C44|1|A+3C44|1|B | Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to paromomycin | X-RAY DIFFRACTION | 2 | 23 |
| 6 | 2OIJ|1|A+2OIJ|1|B | HIV-1 subtype B DIS RNA extended duplex AuCl3 soaked | X-RAY DIFFRACTION | 2.31 | 23 |
| 7 | 2OIY|1|A+2OIY|1|B | Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation site | X-RAY DIFFRACTION | 1.6 | 23 |
| 8 | 3FAR|1|A+3FAR|1|B | Cation-dependent self-cleavage activity in the duplex form of the subtype-B HIV-1 RNA Dimerization Initiation Site | X-RAY DIFFRACTION | 2.4 | 23 |
| 9 | 2OJ0|1|A+2OJ0|1|B | Crystal structure of the duplex form of the HIV-1(LAI) RNA dimerization initiation site MN soaked | X-RAY DIFFRACTION | 2.6 | 23 |
| 10 | 1Y99|1|A+1Y99|1|B | HIV-1 subtype A DIS RNA duplex | X-RAY DIFFRACTION | 2.4 | 26 |
| 11 | 1Y6S|1|B+1Y6S|1|A | HIV-1 DIS(Mal) duplex Ba-soaked | X-RAY DIFFRACTION | 2.9 | 26 |
| 12 | 1Y6T|1|B+1Y6T|1|A | HIV-1 Dis(Mal) Duplex Co Hexamine-Soaked | X-RAY DIFFRACTION | 2.6 | 26 |
| 13 | 1Y73|1|B+1Y73|1|A | HIV-1 Dis(Mal) Duplex Pt-Soaked | X-RAY DIFFRACTION | 2.9 | 26 |
| 14 | 1O3Z|1|B+1O3Z|1|A | HIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKED | X-RAY DIFFRACTION | 2.65 | 26 |
| 15 | 1Y95|1|B+1Y95|1|A | HIV-1 Dis(Mal) Duplex Pb-Soaked | X-RAY DIFFRACTION | 2.8 | 26 |
| 16 | 462D|1|B+462D|1|A | CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITE | X-RAY DIFFRACTION | 2.3 | 26 |
| 17 | 1NLC|1|B+1NLC|1|A | HIV-1 DIS(Mal) duplex Zn-soaked | X-RAY DIFFRACTION | 1.85 | 26 |
| 18 | 1WVD|1|B+1WVD|1|A | HIV-1 Dis(Mal) Duplex CoCl2-Soaked | X-RAY DIFFRACTION | 2.93 | 26 |
| 19 | 1Y90|1|B+1Y90|1|A | HIV-1 Dis(Mal) Duplex Mn-Soaked | X-RAY DIFFRACTION | 3.08 | 25 |
| 20 | 2QEK|1|A+2QEK|1|B | HIV-1 subtype F DIS RNA extended duplex form | X-RAY DIFFRACTION | 1.8 | 23 |