Equivalence class NR_3.5_71188.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5TDJ|1|A (rep) | RNA (5'-R(*CP*CP*GP*GP*CP*GP*CP*CP*GP*G)-3') | synthetic construct | Synthetic | RNA decamer duplex with four 2'-5'-linkages | X-ray diffraction | 1.5 | 2017-01-11 | ||
| 2 | 5TDJ|1|B | RNA (5'-R(*CP*CP*GP*GP*CP*GP*CP*CP*GP*G)-3') | synthetic construct | Synthetic | RNA decamer duplex with four 2'-5'-linkages | X-ray diffraction | 1.5 | 2017-01-11 | ||
| 3 | 4MSR|1|A+ 4MSR|1|B | RNA 10mer duplex with six 2'-5'-linkages | RNA 10mer duplex with six 2'-5'-linkages | X-ray diffraction | 1.2 | 2014-02-12 | ||||
| 4 | 5TDK|1|A+ 5TDK|1|B | RNA (5'-R(*CP*CP*GP*GP*CP*GP*CP*CP*GP*G)-3') | synthetic construct | Synthetic | RNA decamer duplex with eight 2'-5'-linkages | X-ray diffraction | 1.43 | 2017-01-11 | ||
| 5 | 4MS9|1|A | Native RNA duplex 10mer | Native RNA-10mer Structure: ccggcgccgg | X-ray diffraction | 1.32 | 2014-02-12 | ||||
| 6 | 4MSB|1|A+ 4MSB|1|B | RNA 10mer duplex with two 2'-5'-linkages | RNA 10mer duplex with two 2'-5'-linkages | X-ray diffraction | 1.55 | 2014-02-12 | ||||
| 7 | 4MSB|1|C+ 4MSB|1|D | RNA 10mer duplex with two 2'-5'-linkages | RNA 10mer duplex with two 2'-5'-linkages | X-ray diffraction | 1.55 | 2014-02-12 | ||||
| 8 | 4MSB|1|E+ 4MSB|1|F | RNA 10mer duplex with two 2'-5'-linkages | RNA 10mer duplex with two 2'-5'-linkages | X-ray diffraction | 1.55 | 2014-02-12 | ||||
| 9 | 100D|1|A+ 100D|1|B | DNA/RNA (5'-R(*CP*)-D(*CP*GP*GP*CP*GP*CP*CP*GP*)-R(*G)-3') | CRYSTAL STRUCTURE OF THE HIGHLY DISTORTED CHIMERIC DECAMER R(C)D(CGGCGCCG)R(G)-SPERMINE COMPLEX-SPERMINE BINDING TO PHOSPHATE ONLY AND MINOR GROOVE TERTIARY BASE-PAIRING | X-ray diffraction | 1.9 | 1995-03-31 | ||||
| 10 | 161D|1|B | DNA/RNA (5'-D(*CP*CP*GP*GP*CP*)-R(*GP*)-D(*CP*CP*GP*G)-3') | A SINGLE 2'-HYDROXYL GROUP CONVERTS B-DNA TO A-DNA: CRYSTAL STRUCTURE OF THE DNA-RNA CHIMERIC DECAMER DUPLEX D(CCGGC)R(G)D(CCGG) WITH A NOVEL INTERMOLECULAR G.C BASE-PAIRED QUADRUPLET | X-ray diffraction | 1.9 | 1994-05-18 | ||||
| 11 | 161D|1|A | DNA/RNA (5'-D(*CP*CP*GP*GP*CP*)-R(*GP*)-D(*CP*CP*GP*G)-3') | A SINGLE 2'-HYDROXYL GROUP CONVERTS B-DNA TO A-DNA: CRYSTAL STRUCTURE OF THE DNA-RNA CHIMERIC DECAMER DUPLEX D(CCGGC)R(G)D(CCGG) WITH A NOVEL INTERMOLECULAR G.C BASE-PAIRED QUADRUPLET | X-ray diffraction | 1.9 | 1994-05-18 | ||||
| 12 | 394D|1|A+ 394D|1|B | DNA/RNA (5'-D(*CP*CP*GP*GP)-R(*CP*GP)-D(*CP*CP*GP*G)-3') | CRYSTAL STRUCTURE OF TWO SELF-COMPLEMENTARY CHIMERIC DECAMERS D(CCGG)R(C)D(GCCGG) AND D(CCGG)R(CG)D(CCGG) | X-ray diffraction | 1.9 | 1998-05-01 | ||||
| 13 | 393D|1|A | DNA/RNA (5'-D(*CP*CP*GP*GP)-R(*CP)-D(*GP*CP*CP*GP*G)-3') | synthetic construct | CRYSTAL STRUCTURE OF TWO SELF-COMPLEMENTARY CHIMERIC DECAMER D(CCGG)R(C)D(GCCGG) AND D(CCGG)R(CG)D(CCGG) | X-ray diffraction | 2 | 1998-05-01 | |||
| 14 | 393D|1|B | DNA/RNA (5'-D(*CP*CP*GP*GP)-R(*CP)-D(*GP*CP*CP*GP*G)-3') | synthetic construct | CRYSTAL STRUCTURE OF TWO SELF-COMPLEMENTARY CHIMERIC DECAMER D(CCGG)R(C)D(GCCGG) AND D(CCGG)R(CG)D(CCGG) | X-ray diffraction | 2 | 1998-05-01 |
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 | 3.53 | 3.54 | 3.55 | 3.56 | 3.57 | 3.58 | 3.59 | 3.60 | 3.61 | 3.62 | 3.63 | 3.64 | 3.65 | 3.66 | 3.67 | 3.68 | 3.69 | 3.70 | 3.71 | 3.72 | 3.73 | 3.74 | 3.75 | 3.76 | 3.77 | 3.78 | 3.79 | 3.80 | 3.81 | 3.82 | 3.83 | 3.84 | 3.85 | 3.86 | 3.87 | 3.88 | 3.89 | 3.90 | 3.91 | 3.92 | 3.93 | 3.94 | 3.95 | 3.96 | 3.97 | 3.98 | 3.99 | 3.100 | 3.101 | 3.102 | 3.103 | 3.104 | 3.105 | 3.106 | 3.107 | 3.108 | 3.109 | 3.110 | 3.111 | 3.112 | 3.113 | 3.114 | 3.115 | 3.116 | 3.117 | 3.118 | 3.119 | 3.120 | 3.121 | 3.122 | 3.123 | 3.124 | 3.125 | 3.126 | 3.127 | 3.128 | 3.129 | 3.130 | 3.131 | 3.132 | 3.133 | 3.134 | 3.135 | 3.136 | 3.137 | 3.138 | 3.139 | 3.140 | 3.141 |
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| 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 | 2018-12-21 | 2018-12-28 | 2019-01-04 | 2019-01-11 | 2019-01-18 | 2019-01-25 | 2019-02-01 | 2019-02-08 | 2019-02-15 | 2019-02-22 | 2019-03-01 | 2019-03-08 | 2019-03-15 | 2019-03-22 | 2019-03-29 | 2019-04-05 | 2019-04-12 | 2019-04-19 | 2019-04-26 | 2019-05-03 | 2019-05-10 | 2019-05-17 | 2019-05-24 | 2019-05-31 | 2019-06-07 | 2019-06-14 | 2019-06-21 | 2019-06-28 | 2019-07-05 | 2019-07-12 | 2019-07-19 | 2019-07-26 | 2019-08-02 | 2019-08-09 | 2019-08-16 | 2019-08-23 | 2019-08-28 | 2019-09-04 | 2019-09-11 | 2019-09-19 | 2019-09-25 | 2019-10-03 | 2019-10-09 | 2019-10-16 | 2019-10-23 | 2019-10-30 | 2019-11-06 | 2019-11-13 | 2019-11-20 | 2019-11-27 | 2019-12-04 | 2019-12-11 | 2019-12-18 | 2019-12-25 | 2020-01-01 | 2020-01-08 | 2020-01-15 | 2020-01-22 | 2020-01-29 | 2020-02-05 | 2020-02-12 | 2020-02-19 | 2020-02-26 | 2020-03-04 | 2020-03-11 | 2020-03-18 | 2020-03-25 | 2020-04-01 | 2020-04-08 | 2020-04-15 | 2020-04-22 | 2020-04-29 | 2020-05-06 | 2020-05-13 | 2020-05-20 | 2020-05-27 | 2020-06-03 | 2020-06-10 | 2020-06-17 | 2020-06-24 | 2020-07-01 | 2020-07-08 | 2020-07-15 | 2020-07-22 | 2020-07-29 | 2020-08-05 | 2020-08-12 | 2020-08-19 | 2020-08-26 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.5_71188.1 | NR_3.5_87052.1 | 2.153 | (8) 5TDK|1|A+5TDK|1|B, 4MSB|1|A+4MSB|1|B, 5TDJ|1|B, 4MS9|1|A, 5TDJ|1|A, 4MSR|1|A+4MSR|1|B, 4MSB|1|E+4MSB|1|F, 4MSB|1|C+4MSB|1|D | (6) 100D|1|A+100D|1|B, 393D|1|B, 394D|1|A+394D|1|B, 393D|1|A, 161D|1|B, 161D|1|A | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_71188.1 | NR_3.5_71188.2 | 3.142 | (14) 5TDJ|1|A, 161D|1|A, 393D|1|A, 4MS9|1|A, 4MSB|1|E+4MSB|1|F, 100D|1|A+100D|1|B, 4MSB|1|C+4MSB|1|D, 5TDK|1|A+5TDK|1|B, 394D|1|A+394D|1|B, 4MSR|1|A+4MSR|1|B, 161D|1|B, 4MSB|1|A+4MSB|1|B, 5TDJ|1|B, 393D|1|B | (0) | (6) 6Z18|1|A+6Z18|1|B, 6WY2|1|B+6WY2|1|C, 6WY3|1|A+6WY3|1|B, 6WY3|1|C+6WY3|1|D, 6WY2|1|A, 6WY2|1|D+6WY2|1|E |
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 | 4MSB|1|E+4MSB|1|F | RNA 10mer duplex with two 2'-5'-linkages | X-RAY DIFFRACTION | 1.55 | 10 |
| 2 | 4MS9|1|A | Native RNA-10mer Structure: ccggcgccgg | X-RAY DIFFRACTION | 1.32 | 10 |
| 3 | 5TDJ|1|A | RNA decamer duplex with four 2'-5'-linkages | X-RAY DIFFRACTION | 1.5 | 10 |
| 4 | 5TDJ|1|B | RNA decamer duplex with four 2'-5'-linkages | X-RAY DIFFRACTION | 1.5 | 10 |
| 5 | 4MSB|1|C+4MSB|1|D | RNA 10mer duplex with two 2'-5'-linkages | X-RAY DIFFRACTION | 1.55 | 10 |
| 6 | 4MSB|1|A+4MSB|1|B | RNA 10mer duplex with two 2'-5'-linkages | X-RAY DIFFRACTION | 1.55 | 10 |
| 7 | 5TDK|1|A+5TDK|1|B | RNA decamer duplex with eight 2'-5'-linkages | X-RAY DIFFRACTION | 1.43 | 10 |
| 8 | 4MSR|1|A+4MSR|1|B | RNA 10mer duplex with six 2'-5'-linkages | X-RAY DIFFRACTION | 1.2 | 12 |
| 9 | 161D|1|B | A SINGLE 2'-HYDROXYL GROUP CONVERTS B-DNA TO A-DNA: CRYSTAL STRUCTURE OF THE DNA-RNA CHIMERIC DECAMER DUPLEX D(CCGGC)R(G)D(CCGG) WITH A NOVEL INTERMOLECULAR G.C BASE-PAIRED QUADRUPLET | X-RAY DIFFRACTION | 1.9 | 1 |
| 10 | 100D|1|A+100D|1|B | CRYSTAL STRUCTURE OF THE HIGHLY DISTORTED CHIMERIC DECAMER R(C)D(CGGCGCCG)R(G)-SPERMINE COMPLEX-SPERMINE BINDING TO PHOSPHATE ONLY AND MINOR GROOVE TERTIARY BASE-PAIRING | X-RAY DIFFRACTION | 1.9 | 2 |
| 11 | 394D|1|A+394D|1|B | CRYSTAL STRUCTURE OF TWO SELF-COMPLEMENTARY CHIMERIC DECAMERS D(CCGG)R(C)D(GCCGG) AND D(CCGG)R(CG)D(CCGG) | X-RAY DIFFRACTION | 1.9 | 2 |
| 12 | 161D|1|A | A SINGLE 2'-HYDROXYL GROUP CONVERTS B-DNA TO A-DNA: CRYSTAL STRUCTURE OF THE DNA-RNA CHIMERIC DECAMER DUPLEX D(CCGGC)R(G)D(CCGG) WITH A NOVEL INTERMOLECULAR G.C BASE-PAIRED QUADRUPLET | X-RAY DIFFRACTION | 1.9 | 1 |
| 13 | 393D|1|B | CRYSTAL STRUCTURE OF TWO SELF-COMPLEMENTARY CHIMERIC DECAMER D(CCGG)R(C)D(GCCGG) AND D(CCGG)R(CG)D(CCGG) | X-RAY DIFFRACTION | 2 | 1 |
| 14 | 393D|1|A | CRYSTAL STRUCTURE OF TWO SELF-COMPLEMENTARY CHIMERIC DECAMER D(CCGG)R(C)D(GCCGG) AND D(CCGG)R(CG)D(CCGG) | X-RAY DIFFRACTION | 2 | 1 |