Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Complete RNA polymerase II elongation complex III with a T-U mismatch and a frayed RNA 3'-uridine
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 34 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 | 3how_2_DA1_DC2 | BBB | BB00 | 46 | 0.58 |
| 02 | 3how_2_DC2_DT3 | B12 | BB04 | 81 | 0.20 |
| 03 | 3how_2_DT3_DA4 | B12 | BB04 | 84 | 0.21 |
| 04 | 3how_2_DA4_DC5 | B12 | BB04 | 82 | 0.27 |
| 05 | 3how_2_DC5_DT6 | B12 | BB04 | 59 | 0.42 |
| 06 | 3how_2_DT6_DT7 | BBB | BB00 | 82 | 0.30 |
| 07 | 3how_1_DA10_DA11 | NAN | NANT | 0 | 0.86 |
| 08 | 3how_1_DA11_DG12 | NAN | NANT | 0 | 0.46 |
| 09 | 3how_1_DG12_DT13 | BBw | BB02 | 29 | 0.34 |
| 10 | 3how_1_DT13_DA14 | BBB | BB00 | 54 | 0.32 |
| 11 | 3how_1_DA14_DG15 | BBB | BB00 | 72 | 0.31 |
| 12 | 3how_1_DG15_DT16 | BBB | BB00 | 78 | 0.32 |
| 13 | 3how_1_DT16_DT17 | BBB | BB00 | 55 | 0.25 |
| 14 | 3how_1_DT17_DA18 | NAN | NANT | 0 | 1.20 |
| 15 | 3how_1_DA18_DT19 | BBB | BB00 | 43 | 0.48 |
| 16 | 3how_1_DT19_DG20 | BBB | BB00 | 62 | 0.21 |
| 17 | 3how_1_DG20_DC21 | BBB | BB00 | 48 | 0.33 |
| 18 | 3how_1_DC21_DC22 | BBB | BB00 | 50 | 0.29 |
| 19 | 3how_1_DC22_BRU23 | BBw | BB11 | 51 | 0.21 |
| 20 | 3how_1_BRU23_DG24 | BBw | BB16 | 63 | 0.40 |
| 21 | 3how_1_DG24_DG25 | BBB | BB00 | 69 | 0.34 |
| 22 | 3how_1_DG25_DT26 | BBB | BB00 | 69 | 0.26 |
| 23 | 3how_1_DT26_DC27 | BBB | BB00 | 56 | 0.39 |
| 24 | 3how_1_DC27_DA28 | NAN | NANT | 0 | 0.83 |
| 25 | 3how_3_C1_A2 | NAN | NANT | 0 | 0.45 |
| 26 | 3how_3_A2_A3 | NAN | NANT | 0 | 0.48 |
| 27 | 3how_3_A3_C4 | AAA | AA08 | 94 | 0.22 |
| 28 | 3how_3_C4_C5 | AAA | AA00 | 94 | 0.14 |
| 29 | 3how_3_C5_A6 | AAA | AA00 | 80 | 0.25 |
| 30 | 3how_3_A6_G7 | AAA | AA00 | 76 | 0.21 |
| 31 | 3how_3_G7_G8 | AAA | AA00 | 90 | 0.17 |
| 32 | 3how_3_G8_C9 | AAA | AA00 | 82 | 0.21 |
| 33 | 3how_3_C9_U10 | AAw | AA01 | 40 | 0.35 |
| 34 | 3how_3_U10_U11 | NAN | NANT | 0 | 2.45 |
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
Show
| Color by conformation group (pyramids) | |
|---|---|
| group | |||||||||
| visible |
| Color by NtC (balls) |
|---|
| A | ||||
|---|---|---|---|---|
| A-B | ||||
|---|---|---|---|---|
| B-A | ||||
|---|---|---|---|---|
| B | ||||
|---|---|---|---|---|
| IC | ||||
|---|---|---|---|---|
| OPN | ||||
|---|---|---|---|---|
| Z | ||||
|---|---|---|---|---|
| N | ||||
|---|---|---|---|---|