Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Detailed structural insight into the DNA cleavage complex of type IIA topoisomerases (cleaved form)
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 | 3ksa_E_DC9_DA10 | NAN | NANT | 0 | 0.43 |
| 02 | 3ksa_E_DA10_DT11 | NAN | NANT | 0 | 0.42 |
| 03 | 3ksa_E_DT11_DG12 | A-B | AB01 | 15 | 0.51 |
| 04 | 3ksa_E_DG12_DA13 | B-A | BA13 | 76 | 0.27 |
| 05 | 3ksa_E_DA13_DA14 | AAw | AA01 | 66 | 0.36 |
| 06 | 3ksa_E_DA14_DT15 | A-B | AB01 | 11 | 0.32 |
| 07 | 3ksa_F_DA1_DG2 | NAN | NANT | 0 | 0.38 |
| 08 | 3ksa_F_DG2_DT3 | NAN | NANT | 0 | 0.65 |
| 09 | 3ksa_F_DT3_DC4 | NAN | NANT | 0 | 0.50 |
| 10 | 3ksa_F_DC4_DA5 | AAA | AA00 | 67 | 0.24 |
| 11 | 3ksa_F_DA5_DT6 | AAA | AA00 | 87 | 0.20 |
| 12 | 3ksa_F_DT6_DT7 | A-B | AB04 | 59 | 0.34 |
| 13 | 3ksa_F_DT7_DC8 | NAN | NANT | 0 | 0.45 |
| 14 | 3ksa_F_DC8_DA9 | NAN | NANT | 0 | 0.64 |
| 15 | 3ksa_F_DA9_DT10 | BBB | BB01 | 64 | 0.23 |
| 16 | 3ksa_F_DT10_DG11 | BBB | BB00 | 24 | 0.41 |
| 17 | 3ksa_G_DC9_DG10 | A-B | AB01 | 24 | 0.31 |
| 18 | 3ksa_G_DG10_DT11 | B-A | BA01 | 38 | 0.22 |
| 19 | 3ksa_G_DT11_DG12 | NAN | NANT | 0 | 0.65 |
| 20 | 3ksa_G_DG12_DC13 | NAN | NANT | 0 | 0.32 |
| 21 | 3ksa_G_DC13_DA14 | NAN | NANT | 0 | 0.36 |
| 22 | 3ksa_G_DA14_DT15 | AAA | AA00 | 50 | 0.18 |
| 23 | 3ksa_H_DG1_DA2 | AAw | AA06 | 71 | 0.33 |
| 24 | 3ksa_H_DA2_DC3 | NAN | NANT | 0 | 0.52 |
| 25 | 3ksa_H_DC3_DT4 | NAN | NANT | 0 | 0.54 |
| 26 | 3ksa_H_DT4_DA5 | AAA | AA00 | 53 | 0.27 |
| 27 | 3ksa_H_DA5_DT6 | AAw | AA01 | 69 | 0.22 |
| 28 | 3ksa_H_DT6_DG7 | A-B | AB05 | 28 | 0.41 |
| 29 | 3ksa_H_DG7_DC8 | B-A | BA05 | 8 | 0.43 |
| 30 | 3ksa_H_DC8_DA9 | NAN | NANT | 0 | 0.62 |
| 31 | 3ksa_H_DA9_DC10 | BBB | BB01 | 57 | 0.24 |
| 32 | 3ksa_H_DC10_DG11 | BBB | BB00 | 20 | 0.42 |
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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