Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
CPD lesion containing RNA Polymerase II elongation complex D
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Results of the assignment of 32 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
| step number | Step name | CANA | NtC | confal | rmsd |
|---|---|---|---|---|---|
| 01 | 2ja8_N_DT0_DA1 | NAN | NANT | 0 | 0.55 |
| 02 | 2ja8_N_DA1_DA2 | BBB | BB00 | 34 | 0.45 |
| 03 | 2ja8_N_DA2_DG3 | NAN | NANT | 0 | 0.45 |
| 04 | 2ja8_N_DG3_DT4 | NAN | NANT | 0 | 0.52 |
| 05 | 2ja8_N_DT4_DA5 | BBB | BB00 | 60 | 0.26 |
| 06 | 2ja8_N_DA5_DC6 | NAN | NANT | 0 | 0.54 |
| 07 | 2ja8_N_DC6_DT7 | BBB | BB00 | 29 | 0.51 |
| 08 | 2ja8_P_U0_U1 | AAA | AA04 | 41 | 0.53 |
| 09 | 2ja8_P_U1_C2 | AAA | AA00 | 38 | 0.27 |
| 10 | 2ja8_P_C2_G3 | AAA | AA00 | 40 | 0.31 |
| 11 | 2ja8_P_G3_A4 | AAA | AA00 | 68 | 0.18 |
| 12 | 2ja8_P_A4_C5 | AAA | AA08 | 58 | 0.31 |
| 13 | 2ja8_P_C5_C6 | AAA | AA08 | 45 | 0.46 |
| 14 | 2ja8_P_C6_A7 | AAA | AA03 | 19 | 0.37 |
| 15 | 2ja8_P_A7_G8 | NAN | NANT | 0 | 0.64 |
| 16 | 2ja8_P_G8_A9 | NAN | NANT | 0 | 0.53 |
| 17 | 2ja8_T_DA10_DG11 | NAN | NANT | 0 | 0.64 |
| 18 | 2ja8_T_DG11_DT12 | BBB | BB00 | 63 | 0.34 |
| 19 | 2ja8_T_DT12_DA13 | BBB | BB00 | 62 | 0.30 |
| 20 | 2ja8_T_DA13_DC14 | BBB | BB00 | 35 | 0.38 |
| 21 | 2ja8_T_DC14_DT15 | miB | BB15 | 62 | 0.26 |
| 22 | 2ja8_T_DT15_DT16 | miB | BB15 | 58 | 0.27 |
| 23 | 2ja8_T_DT16_DT17 | miB | BB15 | 59 | 0.27 |
| 24 | 2ja8_T_DT17_DT18 | miB | BB15 | 31 | 0.45 |
| 25 | 2ja8_T_DC21_BRU22 | AAA | AA03 | 18 | 0.33 |
| 26 | 2ja8_T_BRU22_DG23 | NAN | NANT | 0 | 0.55 |
| 27 | 2ja8_T_DG23_DG24 | NAN | NANT | 0 | 0.50 |
| 28 | 2ja8_T_DG24_DT25 | NAN | NANT | 0 | 0.52 |
| 29 | 2ja8_T_DT25_DC26 | AAA | AA02 | 48 | 0.45 |
| 30 | 2ja8_T_DC26_DA27 | A-B | AB01 | 14 | 0.35 |
| 31 | 2ja8_T_DA27_DT28 | BBB | BB00 | 59 | 0.30 |
| 32 | 2ja8_T_DT28_DT29 | BBB | BB01 | 52 | 0.22 |
Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
|
step: Table of conformers |
| δ1 | ε1 | ζ1 | α2 | β2 | γ2 | δ2 | χ1 | χ2 | μ | NN | CC | |
| step_torsions | ||||||||||||
| ntC_average | ||||||||||||
| Δ torsions | ||||||||||||
| torsion scores |
| comments | step confal = NaN cartesian RMSD = NaN Å pseudorotation: NA details: NA |
Similarity of step to class averages
Download
Results as csv or json file.Best NtC fitted to input structure.
Restraints
Restraints file for REFMAC (steps with RMSD <= 0.5Å)Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]
Definitions
Average parameters (csv), esd values (csv), and Cartesian coordinates of conformers.Download the papers
Description of DNATCO server:Černý et al., Nucleic Acids Research, 44, W284 (2016).
Definition of conformers:
Schneider et al., Acta Cryst D, 74, 52-64 (2018).
Example of application:
Schneider et al., Genes, 8(10), 278, (2017).
Browse conformers
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