Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Crystal structure of double-stranded DNA deaminase toxin DddA in complex with DNA with the target cytosine parked in the major groove
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 26 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 | 8e5d_C_DG1_DT2 | miB | BB10 | 42 | 0.31 |
| 02 | 8e5d_C_DT2_DA3 | BB2 | BB07 | 17 | 0.26 |
| 03 | 8e5d_C_DA3_DC4 | B12 | BB05 | 80 | 0.23 |
| 04 | 8e5d_C_DC4_DC5 | NAN | NANT | 0 | 0.62 |
| 05 | 8e5d_C_DC5_DG6 | NAN | NANT | 0 | 0.37 |
| 06 | 8e5d_C_DG6_DG7 | NAN | NANT | 0 | 0.48 |
| 07 | 8e5d_C_DG7_DA8 | B-A | BA05 | 15 | 0.44 |
| 08 | 8e5d_C_DA8_DC9 | NAN | NANT | 0 | 0.52 |
| 09 | 8e5d_C_DC9_DG10 | BBB | BB00 | 21 | 0.28 |
| 10 | 8e5d_C_DG10_DT11 | BBB | BB00 | 91 | 0.20 |
| 11 | 8e5d_C_DT11_DT12 | BBB | BB00 | 93 | 0.23 |
| 12 | 8e5d_C_DT12_DG13 | BB2 | BB07 | 80 | 0.28 |
| 13 | 8e5d_C_DG13_DC14 | B-A | BA01 | 42 | 0.22 |
| 14 | 8e5d_B_DG1_DC2 | BBB | BB00 | 62 | 0.18 |
| 15 | 8e5d_B_DC2_DA3 | BBB | BB00 | 77 | 0.27 |
| 16 | 8e5d_B_DA3_DA4 | B12 | BB04 | 84 | 0.21 |
| 17 | 8e5d_B_DA4_DC5 | miB | BB15 | 69 | 0.28 |
| 18 | 8e5d_B_DC5_DG6 | B-A | BA08 | 51 | 0.36 |
| 19 | 8e5d_B_DG6_DT7 | NAN | NANT | 0 | 0.65 |
| 20 | 8e5d_B_DT7_DC8 | NAN | NANT | 0 | 1.10 |
| 21 | 8e5d_B_DC8_DC9 | NAN | NANT | 0 | 1.56 |
| 22 | 8e5d_B_DC9_DG10 | NAN | NANT | 0 | 0.63 |
| 23 | 8e5d_B_DG10_DG11 | NAN | NANT | 0 | 0.43 |
| 24 | 8e5d_B_DG11_DT12 | NAN | NANT | 0 | 0.26 |
| 25 | 8e5d_B_DT12_DA13 | NAN | NANT | 0 | 0.55 |
| 26 | 8e5d_B_DA13_DC14 | NAN | NANT | 0 | 0.68 |
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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