Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
A NOVEL DNA RECOGNITION MODE BY NF-KB P65 HOMODIMER
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 38 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 | 1ram_C_DC1_DG2 | NAN | NANT | 0 | 1.23 |
| 02 | 1ram_C_DG2_DG3 | BB2 | BB07 | 19 | 0.34 |
| 03 | 1ram_C_DG3_DC4 | NAN | NANT | 0 | 0.73 |
| 04 | 1ram_C_DC4_DT5 | miB | BB10 | 66 | 0.41 |
| 05 | 1ram_C_DT5_DG6 | NAN | NANT | 0 | 0.74 |
| 06 | 1ram_C_DG6_DG7 | BBB | BB00 | 54 | 0.52 |
| 07 | 1ram_C_DG7_DA8 | BBw | BB02 | 85 | 0.29 |
| 08 | 1ram_C_DA8_DA9 | BBw | BB02 | 58 | 0.35 |
| 09 | 1ram_C_DA9_DA10 | BBB | BB00 | 39 | 0.34 |
| 10 | 1ram_C_DA10_DT11 | BBB | BB00 | 14 | 0.32 |
| 11 | 1ram_C_DT11_DT12 | BBB | BB00 | 40 | 0.26 |
| 12 | 1ram_C_DT12_DT13 | BBw | BB02 | 51 | 0.27 |
| 13 | 1ram_C_DT13_DC14 | BBB | BB00 | 44 | 0.27 |
| 14 | 1ram_C_DC14_DC15 | B12 | BB04 | 34 | 0.45 |
| 15 | 1ram_C_DC15_DA16 | BB2 | BB07 | 73 | 0.19 |
| 16 | 1ram_C_DA16_DG17 | B12 | BB04 | 45 | 0.39 |
| 17 | 1ram_C_DG17_DC18 | miB | BB10 | 52 | 0.39 |
| 18 | 1ram_C_DC18_DC19 | NAN | NANT | 0 | 0.35 |
| 19 | 1ram_C_DC19_DG20 | B12 | BB04 | 44 | 0.40 |
| 20 | 1ram_D_DC1_DG2 | NAN | NANT | 0 | 1.17 |
| 21 | 1ram_D_DG2_DG3 | NAN | NANT | 0 | 0.45 |
| 22 | 1ram_D_DG3_DC4 | NAN | NANT | 0 | 0.57 |
| 23 | 1ram_D_DC4_DT5 | AAw | AA05 | 28 | 0.38 |
| 24 | 1ram_D_DT5_DG6 | NAN | NANT | 0 | 0.37 |
| 25 | 1ram_D_DG6_DG7 | NAN | NANT | 0 | 0.31 |
| 26 | 1ram_D_DG7_DA8 | AAA | AA02 | 30 | 0.51 |
| 27 | 1ram_D_DA8_DA9 | NAN | NANT | 0 | 0.56 |
| 28 | 1ram_D_DA9_DA10 | AAA | AA04 | 25 | 0.48 |
| 29 | 1ram_D_DA10_DT11 | AAw | AA01 | 8 | 0.40 |
| 30 | 1ram_D_DT11_DT12 | AAA | AA00 | 55 | 0.56 |
| 31 | 1ram_D_DT12_DT13 | NAN | NANT | 0 | 0.48 |
| 32 | 1ram_D_DT13_DC14 | NAN | NANT | 0 | 0.52 |
| 33 | 1ram_D_DC14_DC15 | NAN | NANT | 0 | 0.46 |
| 34 | 1ram_D_DC15_DA16 | NAN | NANT | 0 | 0.64 |
| 35 | 1ram_D_DA16_DG17 | AAw | AA06 | 25 | 0.50 |
| 36 | 1ram_D_DG17_DC18 | NAN | NANT | 0 | 0.41 |
| 37 | 1ram_D_DC18_DC19 | NAN | NANT | 0 | 0.54 |
| 38 | 1ram_D_DC19_DG20 | AAA | AA00 | 6 | 0.46 |
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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