Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Crystal Structure Analysis of the B-DNA Dodecamer CGCGAA-aU-TCGCG, with Incorporated Arabino-Uridine (aU)
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 22 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 | 2fih_A_DC1_DG2 | BBB | BB00 | 92 | 0.19 |
| 02 | 2fih_A_DG2_DC3 | B-A | BA01 | 35 | 0.25 |
| 03 | 2fih_A_DC3_DG4 | A-B | AB01 | 54 | 0.21 |
| 04 | 2fih_A_DG4_DA5 | BBB | BB00 | 73 | 0.27 |
| 05 | 2fih_A_DA5_DA6 | BBB | BB01 | 80 | 0.08 |
| 06 | 2fih_A_DA6_UAR7 | B-A | BA05 | 85 | 0.34 |
| 07 | 2fih_A_UAR7_DT8 | BBB | BB01 | 57 | 0.22 |
| 08 | 2fih_A_DT8_DC9 | BBB | BB01 | 69 | 0.29 |
| 09 | 2fih_A_DC9_DG10 | BBB | BB00 | 67 | 0.38 |
| 10 | 2fih_A_DG10_DC11 | BB2 | BB07 | 61 | 0.39 |
| 11 | 2fih_A_DC11_DG12 | BBB | BB00 | 40 | 0.38 |
| 12 | 2fih_B_DC113_DG114 | B-A | BA05 | 90 | 0.24 |
| 13 | 2fih_B_DG114_DC115 | B-A | BA05 | 24 | 0.40 |
| 14 | 2fih_B_DC115_DG116 | A-B | AB01 | 89 | 0.15 |
| 15 | 2fih_B_DG116_DA117 | BBB | BB00 | 61 | 0.36 |
| 16 | 2fih_B_DA117_DA118 | B-A | BA05 | 80 | 0.23 |
| 17 | 2fih_B_DA118_UAR119 | B-A | BA05 | 84 | 0.33 |
| 18 | 2fih_B_UAR119_DT120 | BBB | BB01 | 55 | 0.20 |
| 19 | 2fih_B_DT120_DC121 | BBB | BB01 | 86 | 0.19 |
| 20 | 2fih_B_DC121_DG122 | BBB | BB00 | 40 | 0.30 |
| 21 | 2fih_B_DG122_DC123 | B-A | BA08 | 75 | 0.37 |
| 22 | 2fih_B_DC123_DG124 | AAA | AA00 | 77 | 0.21 |
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 | ||||
|---|---|---|---|---|