Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Structure of the AvrBs3-DNA complex provides new insights into the initial thymine-recognition mechanism
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 41 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 | 2ypf_B_DT-2_DT-1 | miB | BB15 | 77 | 0.39 |
| 02 | 2ypf_B_DT-1_DT0 | BBB | BB00 | 75 | 0.21 |
| 03 | 2ypf_B_DT0_DA1 | BBB | BB01 | 91 | 0.12 |
| 04 | 2ypf_B_DA1_DT2 | BBB | BB01 | 46 | 0.25 |
| 05 | 2ypf_B_DT2_DA3 | BBB | BB01 | 82 | 0.14 |
| 06 | 2ypf_B_DA3_DT4 | BBB | BB01 | 60 | 0.29 |
| 07 | 2ypf_B_DT4_DA5 | BBB | BB00 | 14 | 0.30 |
| 08 | 2ypf_B_DA5_DA6 | BBB | BB00 | 71 | 0.21 |
| 09 | 2ypf_B_DA6_DA7 | BBB | BB00 | 82 | 0.20 |
| 10 | 2ypf_B_DA7_DC8 | BBB | BB00 | 77 | 0.27 |
| 11 | 2ypf_B_DC8_DC9 | BBB | BB00 | 76 | 0.28 |
| 12 | 2ypf_B_DC9_DT10 | BBB | BB00 | 56 | 0.37 |
| 13 | 2ypf_B_DT10_DA11 | BBB | BB01 | 69 | 0.23 |
| 14 | 2ypf_B_DA11_DA12 | BBB | BB01 | 59 | 0.17 |
| 15 | 2ypf_B_DA12_DC13 | BBB | BB00 | 24 | 0.31 |
| 16 | 2ypf_B_DC13_DC14 | BBB | BB00 | 42 | 0.27 |
| 17 | 2ypf_B_DC14_DC15 | BBB | BB00 | 84 | 0.25 |
| 18 | 2ypf_B_DC15_DT16 | BBB | BB00 | 84 | 0.23 |
| 19 | 2ypf_B_DT16_DC17 | BBB | BB00 | 52 | 0.20 |
| 20 | 2ypf_B_DC17_DT18 | NAN | NANT | 0 | 0.28 |
| 21 | 2ypf_B_DT18_DA19 | NAN | NANT | 0 | 0.49 |
| 22 | 2ypf_C_DT-19_DA-18 | NAN | NANT | 0 | 0.79 |
| 23 | 2ypf_C_DA-18_DG-17 | miB | BB15 | 23 | 0.28 |
| 24 | 2ypf_C_DG-17_DA-16 | miB | BB10 | 75 | 0.32 |
| 25 | 2ypf_C_DA-16_DG-15 | BBB | BB00 | 39 | 0.25 |
| 26 | 2ypf_C_DG-15_DG-14 | BBB | BB00 | 71 | 0.18 |
| 27 | 2ypf_C_DG-14_DG-13 | BBB | BB00 | 42 | 0.28 |
| 28 | 2ypf_C_DG-13_DT-12 | BBB | BB00 | 9 | 0.31 |
| 29 | 2ypf_C_DT-12_DT-11 | B12 | BB04 | 23 | 0.34 |
| 30 | 2ypf_C_DT-11_DA-10 | BBB | BB00 | 68 | 0.14 |
| 31 | 2ypf_C_DA-10_DG-9 | B12 | BB04 | 49 | 0.36 |
| 32 | 2ypf_C_DG-9_DG-8 | BBB | BB00 | 29 | 0.29 |
| 33 | 2ypf_C_DG-8_DT-7 | BBB | BB00 | 32 | 0.34 |
| 34 | 2ypf_C_DT-7_DT-6 | BBB | BB01 | 18 | 0.23 |
| 35 | 2ypf_C_DT-6_DT-5 | A-B | AB03 | 88 | 0.28 |
| 36 | 2ypf_C_DT-5_DA-4 | BBB | BB01 | 78 | 0.17 |
| 37 | 2ypf_C_DA-4_DT-3 | BBB | BB00 | 20 | 0.38 |
| 38 | 2ypf_C_DT-3_DA-2 | BBB | BB00 | 43 | 0.21 |
| 39 | 2ypf_C_DA-2_DT-1 | NAN | NANT | 0 | 0.30 |
| 40 | 2ypf_C_DT-1_DA0 | BB2 | BB07 | 24 | 0.37 |
| 41 | 2ypf_C_DA0_DA1 | BBB | BB00 | 24 | 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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