Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Sequence impact in DNA duplex opening by the Rad4/XPC nucleotide excision repair complex
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 | 6ug1_Y_DG3_DT4 | B12 | BB04 | 47 | 0.47 |
| 02 | 6ug1_Y_DT4_DA5 | B12 | BB04 | 67 | 0.24 |
| 03 | 6ug1_Y_DA5_DG6 | B12 | BB04 | 68 | 0.29 |
| 04 | 6ug1_Y_DG6_DC7 | miB | BB15 | 69 | 0.28 |
| 05 | 6ug1_Y_DC7_DG8 | B12 | BB04 | 41 | 0.25 |
| 06 | 6ug1_Y_DG8_DC9 | BBB | BB00 | 65 | 0.30 |
| 07 | 6ug1_Y_DC9_DG10 | BB2 | BB07 | 50 | 0.36 |
| 08 | 6ug1_Y_DG10_DC11 | BBB | BB00 | 39 | 0.28 |
| 09 | 6ug1_Y_DC11_DG12 | BBB | BB00 | 35 | 0.35 |
| 10 | 6ug1_Y_DG12_DA13 | NAN | NANT | 0 | 0.31 |
| 11 | 6ug1_Y_DA13_DT14 | BBB | BB01 | 43 | 0.23 |
| 12 | 6ug1_Y_DT14_DG15 | BBB | BB00 | 67 | 0.17 |
| 13 | 6ug1_Y_DG15_DT16 | BBB | BB01 | 40 | 0.34 |
| 14 | 6ug1_Y_DT16_DC17 | NAN | NANT | 0 | 0.39 |
| 15 | 6ug1_Y_DC17_DG18 | BBB | BB01 | 65 | 0.31 |
| 16 | 6ug1_Y_DG18_DA19 | BBB | BB01 | 75 | 0.24 |
| 17 | 6ug1_Y_DA19_DG20 | A-B | AB03 | 22 | 0.28 |
| 18 | 6ug1_Y_DG20_DT21 | B12 | BB04 | 48 | 0.34 |
| 19 | 6ug1_Y_DT21_DC22 | B12 | BB04 | 44 | 0.24 |
| 20 | 6ug1_Y_DC22_DA23 | BBB | BB00 | 82 | 0.13 |
| 21 | 6ug1_W_DT2_DG3 | NAN | NANT | 0 | 0.45 |
| 22 | 6ug1_W_DG3_DA4 | NAN | NANT | 0 | 0.60 |
| 23 | 6ug1_W_DA4_DC5 | BBB | BB00 | 55 | 0.31 |
| 24 | 6ug1_W_DC5_DT6 | NAN | NANT | 0 | 0.42 |
| 25 | 6ug1_W_DT6_DC7 | BBB | BB00 | 40 | 0.20 |
| 26 | 6ug1_W_DA9_DC10 | A-B | AB03 | 36 | 0.21 |
| 27 | 6ug1_W_DC10_DA11 | NAN | NANT | 0 | 0.35 |
| 28 | 6ug1_W_DA11_DT12 | A-B | AB03 | 39 | 0.32 |
| 29 | 6ug1_W_DT12_DC13 | BBB | BB00 | 46 | 0.27 |
| 30 | 6ug1_W_DC13_DG14 | BB2 | BB07 | 8 | 0.30 |
| 31 | 6ug1_W_DG14_DC15 | BBB | BB01 | 33 | 0.42 |
| 32 | 6ug1_W_DC15_DG16 | NAN | NANT | 0 | 0.58 |
| 33 | 6ug1_W_DG16_DC17 | BB2 | BB07 | 24 | 0.31 |
| 34 | 6ug1_W_DC17_DG18 | BBB | BB00 | 30 | 0.29 |
| 35 | 6ug1_W_DG18_DC19 | NAN | NANT | 0 | 0.56 |
| 36 | 6ug1_W_DC19_DT20 | NAN | NANT | 0 | 0.57 |
| 37 | 6ug1_W_DT20_DA21 | BBw | BB16 | 56 | 0.29 |
| 38 | 6ug1_W_DA21_DC22 | B-A | BA09 | 78 | 0.24 |
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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