Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Bypass of Major Benzopyrene-dG Adduct by Y-Family DNA Polymerase with Unique Structural Gap
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 28 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 | 2ibk_D_DG1_DG2 | BBB | BB00 | 71 | 0.28 |
| 02 | 2ibk_D_DG2_DG3 | BB2 | BB07 | 49 | 0.32 |
| 03 | 2ibk_D_DG3_DG4 | BBB | BB01 | 68 | 0.31 |
| 04 | 2ibk_D_DG4_DG5 | B12 | BB04 | 7 | 0.41 |
| 05 | 2ibk_D_DG5_DA6 | BB2 | BB07 | 72 | 0.23 |
| 06 | 2ibk_D_DA6_DA7 | BBB | BB00 | 64 | 0.18 |
| 07 | 2ibk_D_DA7_DG8 | BBB | BB00 | 77 | 0.18 |
| 08 | 2ibk_D_DG8_DG9 | BB2 | BB07 | 62 | 0.23 |
| 09 | 2ibk_D_DG9_DA10 | BBB | BB00 | 81 | 0.23 |
| 10 | 2ibk_D_DA10_DT11 | BBB | BB01 | 84 | 0.16 |
| 11 | 2ibk_D_DT11_DT12 | BBB | BB01 | 78 | 0.24 |
| 12 | 2ibk_D_DT12_DA13 | NAN | NANT | 0 | 0.42 |
| 13 | 2ibk_D_DA13_DT14 | SYN | BBS1 | 13 | 0.70 |
| 14 | 2ibk_E_DT102_DC103 | NAN | NANT | 0 | 1.28 |
| 15 | 2ibk_E_DC103_DA104 | NAN | NANT | 0 | 0.36 |
| 16 | 2ibk_E_DA104_DT105 | NAN | NANT | 0 | 0.66 |
| 17 | 2ibk_E_DT105_DG106 | NAN | NANT | 0 | 1.70 |
| 18 | 2ibk_E_DG106_DA107 | NAN | NANT | 0 | 1.95 |
| 19 | 2ibk_E_DA107_DA108 | BBB | BB00 | 40 | 0.23 |
| 20 | 2ibk_E_DA108_DT109 | BBB | BB00 | 53 | 0.32 |
| 21 | 2ibk_E_DT109_DC110 | BBB | BB00 | 82 | 0.20 |
| 22 | 2ibk_E_DC110_DC111 | BBB | BB00 | 82 | 0.33 |
| 23 | 2ibk_E_DC111_DT112 | BB2 | BB07 | 49 | 0.28 |
| 24 | 2ibk_E_DT112_DT113 | miB | BB13 | 41 | 0.28 |
| 25 | 2ibk_E_DT113_DC114 | BBw | BB16 | 59 | 0.37 |
| 26 | 2ibk_E_DC114_DC115 | BBB | BB00 | 31 | 0.26 |
| 27 | 2ibk_E_DC115_DC116 | BBB | BB00 | 46 | 0.28 |
| 28 | 2ibk_E_DC116_DC117 | BBB | BB00 | 59 | 0.35 |
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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