Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Crystal structure of Endonuclease Q complex with 27-mer duplex substrate with an abasic lesion at the active site
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 50 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 | 7k33_B_DG1_DT2 | NAN | NANT | 0 | 0.52 |
| 02 | 7k33_B_DT2_DC3 | B12 | BB04 | 29 | 0.47 |
| 03 | 7k33_B_DC3_DG4 | BB2 | BB08 | 81 | 0.28 |
| 04 | 7k33_B_DG4_DT5 | NAN | NANT | 0 | 0.32 |
| 05 | 7k33_B_DT5_DT6 | BBB | BB00 | 78 | 0.21 |
| 06 | 7k33_B_DT6_DC7 | NAN | NANT | 0 | 0.35 |
| 07 | 7k33_B_DC7_DG8 | BBB | BB00 | 30 | 0.32 |
| 08 | 7k33_B_DG8_DC9 | B12 | BB04 | 31 | 0.18 |
| 09 | 7k33_B_DC9_DT10 | BBB | BB00 | 41 | 0.40 |
| 10 | 7k33_B_DT10_DA11 | BBB | BB00 | 60 | 0.27 |
| 11 | 7k33_B_DA11_DC12 | BBB | BB00 | 88 | 0.13 |
| 12 | 7k33_B_DC12_DA13 | B12 | BB04 | 72 | 0.19 |
| 13 | 7k33_B_DA13_DT14 | NAN | NANT | 0 | 0.92 |
| 14 | 7k33_B_DT14_DG15 | NAN | NANT | 0 | 0.43 |
| 15 | 7k33_B_DG15_DT16 | BB2 | BB07 | 17 | 0.33 |
| 16 | 7k33_B_DT16_DC17 | BBB | BB00 | 30 | 0.23 |
| 17 | 7k33_B_DC17_DG18 | NAN | NANT | 0 | 0.45 |
| 18 | 7k33_B_DG18_DT19 | NAN | NANT | 0 | 0.48 |
| 19 | 7k33_B_DT19_DC20 | miB | BB15 | 43 | 0.30 |
| 20 | 7k33_B_DC20_DG21 | B-A | BA13 | 78 | 0.33 |
| 21 | 7k33_B_DG21_DG22 | A-B | AB01 | 27 | 0.34 |
| 22 | 7k33_B_DG22_DT23 | BBB | BB00 | 67 | 0.23 |
| 23 | 7k33_B_DT23_DC24 | BBB | BB00 | 78 | 0.24 |
| 24 | 7k33_B_DC24_DT25 | BBB | BB00 | 68 | 0.17 |
| 25 | 7k33_B_DT25_DG26 | miB | BB10 | 74 | 0.34 |
| 26 | 7k33_B_DG26_DC27 | B-A | BA01 | 43 | 0.24 |
| 27 | 7k33_C_DG1_DC2 | BBB | BB00 | 53 | 0.22 |
| 28 | 7k33_C_DC2_DA3 | B12 | BB04 | 81 | 0.32 |
| 29 | 7k33_C_DA3_DG4 | BBB | BB00 | 80 | 0.18 |
| 30 | 7k33_C_DG4_DA5 | BBB | BB00 | 58 | 0.31 |
| 31 | 7k33_C_DA5_DC6 | BBB | BB01 | 76 | 0.17 |
| 32 | 7k33_C_DC6_DC7 | BBB | BB00 | 50 | 0.26 |
| 33 | 7k33_C_DC7_DG8 | B12 | BB04 | 77 | 0.24 |
| 34 | 7k33_C_DG8_DA9 | miB | BB10 | 43 | 0.23 |
| 35 | 7k33_C_DA9_DC10 | A-B | AB02 | 53 | 0.41 |
| 36 | 7k33_C_DC10_DG11 | B12 | BB04 | 82 | 0.19 |
| 37 | 7k33_C_DG11_DA12 | B12 | BB04 | 70 | 0.28 |
| 38 | 7k33_C_DA12_DC13 | NAN | NANT | 0 | 0.80 |
| 39 | 7k33_C_DT15_DG16 | B12 | BB04 | 49 | 0.20 |
| 40 | 7k33_C_DG16_DT17 | BBB | BB00 | 76 | 0.16 |
| 41 | 7k33_C_DT17_DA18 | NAN | NANT | 0 | 0.63 |
| 42 | 7k33_C_DA18_DG19 | NAN | NANT | 0 | 0.63 |
| 43 | 7k33_C_DG19_DC20 | NAN | NANT | 0 | 0.43 |
| 44 | 7k33_C_DC20_DG21 | BBw | BB11 | 58 | 0.52 |
| 45 | 7k33_C_DG21_DA22 | BBB | BB00 | 64 | 0.34 |
| 46 | 7k33_C_DA22_DA23 | B12 | BB04 | 79 | 0.17 |
| 47 | 7k33_C_DA23_DC24 | BBB | BB00 | 83 | 0.22 |
| 48 | 7k33_C_DC24_DG25 | B12 | BB04 | 66 | 0.44 |
| 49 | 7k33_C_DG25_DA26 | NAN | NANT | 0 | 0.57 |
| 50 | 7k33_C_DA26_DC27 | NAN | NANT | 0 | 0.49 |
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
Show
| Color by conformation group (pyramids) | |
|---|---|
| group | |||||||||
| visible |
| Color by NtC (balls) |
|---|
| A | ||||
|---|---|---|---|---|
| A-B | ||||
|---|---|---|---|---|
| B-A | ||||
|---|---|---|---|---|
| B | ||||
|---|---|---|---|---|
| IC | ||||
|---|---|---|---|---|
| OPN | ||||
|---|---|---|---|---|
| Z | ||||
|---|---|---|---|---|
| N | ||||
|---|---|---|---|---|