Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Self-assembly of a 3D DNA crystal lattice (4x5 duplex version) containing the J19 immobile Holliday junction
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 | 6wsu_A_DG1_DA2 | A-B | AB01 | 33 | 0.32 |
| 02 | 6wsu_A_DA2_DG3 | BBB | BB00 | 46 | 0.27 |
| 03 | 6wsu_A_DG3_DC4 | B12 | BB04 | 18 | 0.34 |
| 04 | 6wsu_A_DC4_DA5 | BBB | BB00 | 53 | 0.38 |
| 05 | 6wsu_A_DA5_DG6 | B12 | BB04 | 61 | 0.28 |
| 06 | 6wsu_A_DG6_DA7 | BBB | BB00 | 10 | 0.28 |
| 07 | 6wsu_A_DA7_DC8 | BBB | BB01 | 56 | 0.24 |
| 08 | 6wsu_A_DC8_DG9 | BBB | BB00 | 77 | 0.24 |
| 09 | 6wsu_A_DG9_DA10 | miB | BB15 | 47 | 0.35 |
| 10 | 6wsu_A_DA10_DG11 | BBB | BB00 | 79 | 0.21 |
| 11 | 6wsu_A_DG11_DA12 | BBB | BB01 | 81 | 0.18 |
| 12 | 6wsu_A_DA12_DC13 | B-A | BA09 | 25 | 0.29 |
| 13 | 6wsu_A_DC13_DT14 | NAN | NANT | 0 | 0.21 |
| 14 | 6wsu_A_DT14_DC15 | BBB | BB00 | 23 | 0.27 |
| 15 | 6wsu_A_DC15_DC16 | BBB | BB00 | 27 | 0.24 |
| 16 | 6wsu_A_DC16_DA17 | B12 | BB04 | 50 | 0.32 |
| 17 | 6wsu_A_DA17_DC18 | BBB | BB01 | 55 | 0.29 |
| 18 | 6wsu_A_DC18_DT19 | miB | BB15 | 39 | 0.31 |
| 19 | 6wsu_A_DT19_DC20 | B12 | BB04 | 64 | 0.37 |
| 20 | 6wsu_A_DC20_DA21 | B12 | BB04 | 62 | 0.28 |
| 21 | 6wsu_B_DA1_DG2 | AAA | AA00 | 65 | 0.27 |
| 22 | 6wsu_B_DG2_DT3 | A-B | AB01 | 45 | 0.32 |
| 23 | 6wsu_B_DT3_DC4 | BBB | BB00 | 83 | 0.19 |
| 24 | 6wsu_B_DC4_DT5 | NAN | NANT | 0 | 0.55 |
| 25 | 6wsu_C_DT1_DC2 | NAN | NANT | 0 | 0.31 |
| 26 | 6wsu_C_DC2_DT3 | BBw | BB16 | 42 | 0.60 |
| 27 | 6wsu_C_DT3_DG4 | B12 | BB04 | 77 | 0.27 |
| 28 | 6wsu_C_DG4_DA5 | BBB | BB00 | 74 | 0.21 |
| 29 | 6wsu_C_DA5_DG6 | BBw | BB02 | 77 | 0.22 |
| 30 | 6wsu_C_DG6_DT7 | miB | BB15 | 69 | 0.22 |
| 31 | 6wsu_C_DT7_DG8 | BBB | BB00 | 25 | 0.42 |
| 32 | 6wsu_C_DG8_DG9 | BBB | BB00 | 50 | 0.34 |
| 33 | 6wsu_D_DC10_DG11 | AAA | AA00 | 72 | 0.32 |
| 34 | 6wsu_D_DG11_DT12 | A-B | AB05 | 34 | 0.26 |
| 35 | 6wsu_D_DT12_DC13 | BBw | BB02 | 31 | 0.32 |
| 36 | 6wsu_D_DC13_DT14 | BBB | BB00 | 25 | 0.22 |
| 37 | 6wsu_D_DT14_DG15 | NAN | NANT | 0 | 0.35 |
| 38 | 6wsu_D_DG15_DC16 | NAN | NANT | 0 | 0.60 |
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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| Color by conformation group (pyramids) | |
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