Equivalence class NR_20.0_34359.8 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2NVQ|1|R (rep) | 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3' | synthetic construct | RNA Polymerase II Elongation Complex in 150 mM Mg+2 with 2'dUTP | X-ray diffraction | 2.9 | 2006-12-12 | |||
| 2 | 6UPZ|1|R | RNA | synthetic construct | RNA polymerase II elongation complex with 5-guanidinohydantoin lesion in state 3 | X-ray diffraction | 3.1 | 2020-06-10 | |||
| 3 | 2NVX|1|R | 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3' | RNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dUTP | X-ray diffraction | 3.6 | 2006-12-19 | ||||
| 4 | 2E2I|1|R | 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3' | RNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dGTP | X-ray diffraction | 3.41 | 2006-12-19 | ||||
| 5 | 6UQ0|1|R | RNA | synthetic construct | RNA polymerase II elongation complex with 5-guanidinohydantoin lesion in state 4 | X-ray diffraction | 3.56 | 2020-06-10 | |||
| 6 | 7KEE|1|R | RNA | synthetic construct | RNA polymerase II elongation complex with unnatural base dTPT3, rNaMTP bound to E-site | X-ray diffraction | 3.45 | 2021-06-23 | |||
| 7 | 2E2H|1|R | 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3' | RNA polymerase II elongation complex at 5 mM Mg2+ with GTP | X-ray diffraction | 3.95 | 2006-12-12 | ||||
| 8 | 7KED|1|R | RNA | synthetic construct | RNA polymerase II elongation complex with unnatural base dTPT3 | X-ray diffraction | 3.6 | 2021-06-23 | |||
| 9 | 2NVZ|1|R | 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3' | synthetic construct | RNA Polymerase II elongation complex with UTP, updated 11/2006 | X-ray diffraction | 4.3 | 2006-12-19 | |||
| 10 | 7KEF|1|R | RNA | synthetic construct | RNA polymerase II elongation complex with unnatural base dTPT3, rNaM in swing state | X-ray diffraction | 3.89 | 2021-06-23 | |||
| 11 | 1SFO|1|R | RNA STRAND | RNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX | X-ray diffraction | 3.61 | 2004-03-02 | ||||
| 12 | 1R9T|1|R | RNA strand | RNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX, MISMATCHED NUCLEOTIDE | X-ray diffraction | 3.5 | 2004-11-16 | ||||
| 13 | 2YU9|1|R | 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3' | synthetic construct | RNA polymerase II elongation complex in 150 mm MG+2 with UTP | X-ray diffraction | 3.4 | 2007-04-24 | |||
| 14 | 1R9S|1|R | RNA strand | RNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX, MATCHED NUCLEOTIDE | X-ray diffraction | 4.25 | 2004-11-16 | ||||
| 15 | 7OOB|1|P | RNA | Homo sapiens | Pol II-CSB-CSA-DDB1-UVSSA-ADPBeF3 (Structure2) | Electron microscopy | 2.7 | 2021-10-13 | |||
| 16 | 7OO3|1|P | RNA | Homo sapiens | Pol II-CSB-CSA-DDB1-UVSSA (Structure1) | Electron microscopy | 2.8 | 2021-10-06 | |||
| 17 | 6H67|1|R | RNA | Saccharomyces cerevisiae | Yeast RNA polymerase I elongation complex stalled by cyclobutane pyrimidine dimer (CPD) | Electron microscopy | 3.6 | 2018-08-29 | |||
| 18 | 6H68|1|R | RNA | Saccharomyces cerevisiae | Yeast RNA polymerase I elongation complex stalled by cyclobutane pyrimidine dimer (CPD) with fully-ordered A49 | Electron microscopy | 4.6 | 2018-08-29 | |||
| 19 | 7Z2Z|1|R | RNA | Saccharomyces cerevisiae S288C | Structure of yeast RNA Polymerase III-DNA-Ty1 integrase complex (Pol III-DNA-IN1) at 3.1 A | Electron microscopy | 3.07 | 2023-04-05 | |||
| 20 | 5VVR|1|R | RNA | Saccharomyces cerevisiae | Ternary complex of RNA Pol II, transcription scaffold and Rad26 | Electron microscopy | 5.8 | 2017-11-22 | |||
| 21 | 5VVS|1|R | RNA | Saccharomyces cerevisiae | RNA pol II elongation complex | Electron microscopy | 6.4 | 2017-11-22 |
Release history
| Release | 3.277 | 3.278 | 3.279 | 3.280 | 3.281 | 3.282 | 3.283 | 3.284 | 3.285 | 3.286 | 3.287 | 3.288 | 3.289 | 3.290 | 3.291 | 3.292 | 3.293 | 3.294 | 3.295 | 3.296 | 3.297 | 3.298 | 3.299 | 3.300 | 3.301 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2023-04-05 | 2023-04-12 | 2023-04-19 | 2023-04-26 | 2023-05-03 | 2023-05-10 | 2023-05-17 | 2023-05-24 | 2023-05-31 | 2023-06-07 | 2023-06-14 | 2023-06-21 | 2023-06-28 | 2023-07-05 | 2023-07-12 | 2023-07-19 | 2023-07-26 | 2023-08-02 | 2023-08-09 | 2023-08-16 | 2023-08-23 | 2023-08-30 | 2023-09-06 | 2023-09-13 | 2023-09-20 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_20.0_34359.8 | NR_20.0_34359.7 | 3.277 | (20) 7OOB|1|P, 7OO3|1|P, 7KEF|1|R, 7KEE|1|R, 7KED|1|R, 6UQ0|1|R, 6UPZ|1|R, 6H68|1|R, 6H67|1|R, 5VVS|1|R, 5VVR|1|R, 2YU9|1|R, 2NVZ|1|R, 2NVX|1|R, 2NVQ|1|R, 2E2I|1|R, 2E2H|1|R, 1SFO|1|R, 1R9T|1|R, 1R9S|1|R | (1) 7Z2Z|1|R | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_20.0_34359.8 | NR_20.0_34359.9 | 3.302 | (21) 1R9S|1|R, 2YU9|1|R, 7KEE|1|R, 2NVZ|1|R, 7KED|1|R, 2NVX|1|R, 6UQ0|1|R, 2NVQ|1|R, 6UPZ|1|R, 2E2I|1|R, 6H68|1|R, 7Z2Z|1|R, 2E2H|1|R, 6H67|1|R, 7OOB|1|P, 1SFO|1|R, 5VVS|1|R, 7OO3|1|P, 1R9T|1|R, 5VVR|1|R, 7KEF|1|R | (0) | (2) 8B3D|1|P, 8B3F|1|P |
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 | 7Z2Z|1|R | Structure of yeast RNA Polymerase III-DNA-Ty1 integrase complex (Pol III-DNA-IN1) at 3.1 A | ELECTRON MICROSCOPY | 3.07 | 3 |
| 2 | 5VVS|1|R | RNA pol II elongation complex | ELECTRON MICROSCOPY | 6.4 | 10 |
| 3 | 6H67|1|R | Yeast RNA polymerase I elongation complex stalled by cyclobutane pyrimidine dimer (CPD) | ELECTRON MICROSCOPY | 3.6 | 9 |
| 4 | 7KEE|1|R | RNA polymerase II elongation complex with unnatural base dTPT3, rNaMTP bound to E-site | X-RAY DIFFRACTION | 3.45 | 10 |
| 5 | 7KED|1|R | RNA polymerase II elongation complex with unnatural base dTPT3 | X-RAY DIFFRACTION | 3.6 | 10 |
| 6 | 6UQ0|1|R | RNA polymerase II elongation complex with 5-guanidinohydantoin lesion in state 4 | X-RAY DIFFRACTION | 3.56 | 9 |
| 7 | 2NVZ|1|R | RNA Polymerase II elongation complex with UTP, updated 11/2006 | X-RAY DIFFRACTION | 4.3 | 10 |
| 8 | 2E2H|1|R | RNA polymerase II elongation complex at 5 mM Mg2+ with GTP | X-RAY DIFFRACTION | 3.95 | 10 |
| 9 | 2NVX|1|R | RNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dUTP | X-RAY DIFFRACTION | 3.6 | 10 |
| 10 | 2E2I|1|R | RNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dGTP | X-RAY DIFFRACTION | 3.41 | 10 |
| 11 | 2YU9|1|R | RNA polymerase II elongation complex in 150 mm MG+2 with UTP | X-RAY DIFFRACTION | 3.4 | 10 |
| 12 | 2NVQ|1|R | RNA Polymerase II Elongation Complex in 150 mM Mg+2 with 2'dUTP | X-RAY DIFFRACTION | 2.9 | 10 |
| 13 | 7OO3|1|P | Pol II-CSB-CSA-DDB1-UVSSA (Structure1) | ELECTRON MICROSCOPY | 2.8 | 10 |
| 14 | 7OOB|1|P | Pol II-CSB-CSA-DDB1-UVSSA-ADPBeF3 (Structure2) | ELECTRON MICROSCOPY | 2.7 | 10 |
| 15 | 5VVR|1|R | Ternary complex of RNA Pol II, transcription scaffold and Rad26 | ELECTRON MICROSCOPY | 5.8 | 10 |
| 16 | 6UPZ|1|R | RNA polymerase II elongation complex with 5-guanidinohydantoin lesion in state 3 | X-RAY DIFFRACTION | 3.1 | 10 |
| 17 | 1SFO|1|R | RNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX | X-RAY DIFFRACTION | 3.61 | 10 |
| 18 | 1R9T|1|R | RNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX, MISMATCHED NUCLEOTIDE | X-RAY DIFFRACTION | 3.5 | 10 |
| 19 | 1R9S|1|R | RNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX, MATCHED NUCLEOTIDE | X-RAY DIFFRACTION | 4.25 | 10 |
| 20 | 6H68|1|R | Yeast RNA polymerase I elongation complex stalled by cyclobutane pyrimidine dimer (CPD) with fully-ordered A49 | ELECTRON MICROSCOPY | 4.6 | 10 |
| 21 | 7KEF|1|R | RNA polymerase II elongation complex with unnatural base dTPT3, rNaM in swing state | X-RAY DIFFRACTION | 3.89 | 10 |