Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Selectivity of Nucleoside Triphosphate Incorporation Opposite 1,N2-Propanodeoxyguanosine (PdG) by the Sulfolobus solfataricus DNA Polymerase Dpo4 Polymerase
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 | 2r8h_P_DG501_DG502 | NAN | NANT | 0 | 0.84 |
| 02 | 2r8h_P_DG502_DG503 | NAN | NANT | 0 | 0.67 |
| 03 | 2r8h_P_DG503_DG504 | NAN | NANT | 0 | 0.48 |
| 04 | 2r8h_P_DG504_DG505 | B12 | BB04 | 44 | 0.32 |
| 05 | 2r8h_P_DG505_DA506 | BBB | BB00 | 75 | 0.20 |
| 06 | 2r8h_P_DA506_DA507 | B12 | BB04 | 58 | 0.27 |
| 07 | 2r8h_P_DA507_DG508 | BBB | BB00 | 61 | 0.27 |
| 08 | 2r8h_P_DG508_DG509 | BBB | BB00 | 64 | 0.29 |
| 09 | 2r8h_P_DG509_DA510 | BBw | BB02 | 52 | 0.27 |
| 10 | 2r8h_P_DA510_DT511 | BBB | BB00 | 67 | 0.27 |
| 11 | 2r8h_P_DT511_DT512 | BBB | BB00 | 75 | 0.28 |
| 12 | 2r8h_P_DT512_DC513 | BBB | BB00 | 83 | 0.19 |
| 13 | 2r8h_T_DC602_DA603 | NAN | NANT | 0 | 0.80 |
| 14 | 2r8h_T_DA603_DC604 | NAN | NANT | 0 | 0.79 |
| 15 | 2r8h_T_DG606_DA607 | B12 | BB04 | 65 | 0.30 |
| 16 | 2r8h_T_DA607_DA608 | B12 | BB04 | 37 | 0.22 |
| 17 | 2r8h_T_DA608_DT609 | BBB | BB00 | 64 | 0.20 |
| 18 | 2r8h_T_DT609_DC610 | BBw | BB02 | 83 | 0.18 |
| 19 | 2r8h_T_DC610_DC611 | BBB | BB00 | 75 | 0.26 |
| 20 | 2r8h_T_DC611_DT612 | B12 | BB04 | 41 | 0.28 |
| 21 | 2r8h_T_DT612_DT613 | BBB | BB00 | 88 | 0.13 |
| 22 | 2r8h_T_DT613_DC614 | BBB | BB00 | 59 | 0.26 |
| 23 | 2r8h_T_DC614_DC615 | BBB | BB00 | 77 | 0.19 |
| 24 | 2r8h_T_DC615_DC616 | BBB | BB00 | 61 | 0.27 |
| 25 | 2r8h_T_DC616_DC617 | BBB | BB00 | 83 | 0.25 |
| 26 | 2r8h_T_DC617_DC618 | BBw | BB11 | 41 | 0.43 |
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 | ||||
|---|---|---|---|---|