Equivalence class NR_3.0_01949.3 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5UED|1|A+ 5UED|1|B (rep) | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*GP*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA primer-template complex with guanosine dinucleotide ligand G(5')pp(5')G | X-ray diffraction | 1.5 | 2017-07-05 | ||
| 2 | 6C8J|1|A+ 6C8J|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA-activated 2-AIpG monomer complex, 15 min soaking | X-ray diffraction | 1.5 | 2018-05-30 | ||
| 3 | 6C8D|1|A+ 6C8D|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA-dGMP complex with Mg ion | X-ray diffraction | 1.92 | 2018-05-30 | ||
| 4 | 6C8I|1|A+ 6C8I|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA-activated 2-AIpG monomer complex, 5 min soaking | X-ray diffraction | 1.77 | 2018-05-30 | ||
| 5 | 5UEE|1|A+ 5UEE|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*GP*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA primer-template complex with guanosine dinucleotide ligand G(5')ppp(5')G | X-ray diffraction | 1.9 | 2017-07-05 | ||
| 6 | 6C8L|1|A+ 6C8L|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA-activated 2-AIpG monomer complex, 1h soaking | X-ray diffraction | 2.25 | 2018-05-30 | ||
| 7 | 6C8E|1|A+ 6C8E|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA-imidazolium-bridged intermediate complex, 4h soaking | X-ray diffraction | 1.8 | 2018-05-30 | ||
| 8 | 6U8U|1|A+ 6U8U|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA duplex bound with TNA 3'-3' imidazolium dimer | X-ray diffraction | 2.4 | 2020-12-09 | ||
| 9 | 5UEF|1|A+ 5UEF|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*GP*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA primer-template complex with guanosine dinucleotide p(5')G(3')p(5')G ligand | X-ray diffraction | 2.1 | 2017-07-05 | ||
| 10 | 6C8K|1|A+ 6C8K|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA-activated 2-AIpG monomer complex, 30 min soaking | X-ray diffraction | 2.26 | 2018-05-30 | ||
| 11 | 6CAB|1|A+ 6CAB|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA-dGMP complex with Sr ion | X-ray diffraction | 2.5 | 2018-05-30 | ||
| 12 | 6OWL|1|A | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*R)-3') | synthetic construct | Synthetic | RNA oligonucleotides with 3'-arabino guanosine co-crystallized with GMP | X-ray diffraction | 2 | 2020-02-26 | ||
| 13 | 5UEG|1|A+ 5UEG|1|B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*GP*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA primer-template complex with guanosine dinucleotide G(5')pppp(5')G ligand | X-ray diffraction | 2.6 | 2017-07-05 | ||
| 14 | 5UEG|1|C+ 5UEG|1|D | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*GP*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') | synthetic construct | Synthetic | RNA primer-template complex with guanosine dinucleotide G(5')pppp(5')G ligand | X-ray diffraction | 2.6 | 2017-07-05 |
Release history
| Release | 3.156 | 3.157 | 3.158 | 3.159 | 3.160 | 3.161 | 3.162 | 3.163 | 3.164 | 3.165 | 3.166 | 3.167 | 3.168 | 3.169 | 3.170 | 3.171 | 3.172 | 3.173 | 3.174 | 3.175 | 3.176 | 3.177 | 3.178 | 3.179 | 3.180 | 3.181 | 3.182 | 3.183 | 3.184 | 3.185 | 3.186 | 3.187 | 3.188 | 3.189 | 3.190 | 3.191 | 3.192 | 3.193 | 3.194 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2020-12-09 | 2020-12-16 | 2020-12-23 | 2020-12-30 | 2021-01-06 | 2021-01-13 | 2021-01-20 | 2021-01-27 | 2021-02-03 | 2021-02-10 | 2021-02-17 | 2021-02-24 | 2021-03-03 | 2021-03-10 | 2021-03-17 | 2021-03-24 | 2021-03-31 | 2021-04-07 | 2021-04-14 | 2021-04-21 | 2021-04-28 | 2021-05-05 | 2021-05-12 | 2021-05-19 | 2021-05-26 | 2021-06-02 | 2021-06-09 | 2021-06-16 | 2021-06-23 | 2021-06-30 | 2021-07-07 | 2021-07-14 | 2021-07-21 | 2021-07-28 | 2021-08-04 | 2021-08-11 | 2021-08-18 | 2021-08-25 | 2021-09-01 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.0_01949.3 | NR_3.0_01949.2 | 3.156 | (13) 6OWL|1|A, 6CAB|1|A+6CAB|1|B, 6C8L|1|A+6C8L|1|B, 6C8K|1|A+6C8K|1|B, 6C8J|1|A+6C8J|1|B, 6C8I|1|A+6C8I|1|B, 6C8E|1|A+6C8E|1|B, 6C8D|1|A+6C8D|1|B, 5UEG|1|C+5UEG|1|D, 5UEG|1|A+5UEG|1|B, 5UEF|1|A+5UEF|1|B, 5UEE|1|A+5UEE|1|B, 5UED|1|A+5UED|1|B | (1) 6U8U|1|A+6U8U|1|B | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.0_01949.3 | NR_3.0_01949.4 | 3.195 | (14) 6C8L|1|A+6C8L|1|B, 6U8U|1|A+6U8U|1|B, 5UEE|1|A+5UEE|1|B, 5UEG|1|C+5UEG|1|D, 6C8I|1|A+6C8I|1|B, 5UED|1|A+5UED|1|B, 5UEG|1|A+5UEG|1|B, 6C8E|1|A+6C8E|1|B, 6C8K|1|A+6C8K|1|B, 6OWL|1|A, 5UEF|1|A+5UEF|1|B, 6C8D|1|A+6C8D|1|B, 6C8J|1|A+6C8J|1|B, 6CAB|1|A+6CAB|1|B | (0) | (5) 7KUO|1|A+7KUO|1|B, 7KUP|1|A+7KUP|1|B, 7KUK|1|A+7KUK|1|B, 7KUL|1|A+7KUL|1|B, 7KUM|1|A+7KUM|1|B |
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 | 6CAB|1|A+6CAB|1|B | RNA-dGMP complex with Sr ion | X-RAY DIFFRACTION | 2.5 | 12 |
| 2 | 6C8L|1|A+6C8L|1|B | RNA-activated 2-AIpG monomer complex, 1h soaking | X-RAY DIFFRACTION | 2.25 | 10 |
| 3 | 6C8K|1|A+6C8K|1|B | RNA-activated 2-AIpG monomer complex, 30 min soaking | X-RAY DIFFRACTION | 2.26 | 10 |
| 4 | 5UEE|1|A+5UEE|1|B | RNA primer-template complex with guanosine dinucleotide ligand G(5')ppp(5')G | X-RAY DIFFRACTION | 1.9 | 11 |
| 5 | 6C8E|1|A+6C8E|1|B | RNA-imidazolium-bridged intermediate complex, 4h soaking | X-RAY DIFFRACTION | 1.8 | 10 |
| 6 | 6C8J|1|A+6C8J|1|B | RNA-activated 2-AIpG monomer complex, 15 min soaking | X-RAY DIFFRACTION | 1.5 | 10 |
| 7 | 6C8D|1|A+6C8D|1|B | RNA-dGMP complex with Mg ion | X-RAY DIFFRACTION | 1.92 | 10 |
| 8 | 5UEG|1|C+5UEG|1|D | RNA primer-template complex with guanosine dinucleotide G(5')pppp(5')G ligand | X-RAY DIFFRACTION | 2.6 | 11 |
| 9 | 5UEG|1|A+5UEG|1|B | RNA primer-template complex with guanosine dinucleotide G(5')pppp(5')G ligand | X-RAY DIFFRACTION | 2.6 | 11 |
| 10 | 5UEF|1|A+5UEF|1|B | RNA primer-template complex with guanosine dinucleotide p(5')G(3')p(5')G ligand | X-RAY DIFFRACTION | 2.1 | 11 |
| 11 | 5UED|1|A+5UED|1|B | RNA primer-template complex with guanosine dinucleotide ligand G(5')pp(5')G | X-RAY DIFFRACTION | 1.5 | 11 |
| 12 | 6C8I|1|A+6C8I|1|B | RNA-activated 2-AIpG monomer complex, 5 min soaking | X-RAY DIFFRACTION | 1.77 | 10 |
| 13 | 6U8U|1|A+6U8U|1|B | RNA duplex bound with TNA 3'-3' imidazolium dimer | X-RAY DIFFRACTION | 2.4 | 10 |
| 14 | 6OWL|1|A | RNA oligonucleotides with 3'-arabino guanosine co-crystallized with GMP | X-RAY DIFFRACTION | 2 | 9 |