Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
DNA polymerase beta reactant complex with 8-oxoG:C at the primer terminus and incoming dCTP
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 31 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 | 5v1r_T_DC1_DC2 | NAN | NANT | 0 | 0.60 |
| 02 | 5v1r_T_DC2_DG3 | BB2 | BB07 | 22 | 0.32 |
| 03 | 5v1r_T_DG3_DA4 | miB | BB10 | 55 | 0.21 |
| 04 | 5v1r_T_DA4_DC5 | B-A | BA05 | 74 | 0.29 |
| 05 | 5v1r_T_DC5_DG6 | NAN | NANT | 0 | 1.30 |
| 06 | 5v1r_T_DG6_DC7 | B-A | BA05 | 74 | 0.21 |
| 07 | 5v1r_T_DC7_DC8 | BBB | BB01 | 24 | 0.24 |
| 08 | 5v1r_T_DC8_DG9 | B12 | BB04 | 40 | 0.39 |
| 09 | 5v1r_T_DG9_DC10 | BBB | BB00 | 88 | 0.16 |
| 10 | 5v1r_T_DC10_DA11 | BBB | BB00 | 92 | 0.17 |
| 11 | 5v1r_T_DA11_DT12 | BBB | BB01 | 82 | 0.19 |
| 12 | 5v1r_T_DT12_DC13 | BBB | BB00 | 18 | 0.27 |
| 13 | 5v1r_T_DC13_DA14 | BBB | BB00 | 45 | 0.28 |
| 14 | 5v1r_T_DA14_DG15 | BBB | BB00 | 75 | 0.21 |
| 15 | 5v1r_T_DG15_DC16 | B-A | BA05 | 61 | 0.25 |
| 16 | 5v1r_P_DG1_DC2 | NAN | NANT | 0 | 0.44 |
| 17 | 5v1r_P_DC2_DT3 | NAN | NANT | 0 | 0.41 |
| 18 | 5v1r_P_DT3_DG4 | B12 | BB04 | 44 | 0.32 |
| 19 | 5v1r_P_DG4_DA5 | BBB | BB00 | 79 | 0.24 |
| 20 | 5v1r_P_DA5_DT6 | BBB | BB00 | 92 | 0.15 |
| 21 | 5v1r_P_DT6_DG7 | BBB | BB00 | 84 | 0.16 |
| 22 | 5v1r_P_DG7_DC8 | B-A | BA05 | 92 | 0.10 |
| 23 | 5v1r_P_DC8_DG9 | A-B | AB01 | 48 | 0.35 |
| 24 | 5v1r_P_DG9_8OG.A10 | NAN | NANT | 0 | 0.54 |
| 25 | 5v1r_P_DG9_8OG.B10 | NAN | NANT | 0 | 0.54 |
| 26 | 5v1r_P_8OG.A10_DC.B11 | AAA | AA00 | 14 | 0.24 |
| 27 | 5v1r_P_8OG.B10_DC.B11 | AAA | AA00 | 16 | 0.23 |
| 28 | 5v1r_D_DG1_DT2 | BBB | BB00 | 79 | 0.26 |
| 29 | 5v1r_D_DT2_DC3 | BBB | BB00 | 88 | 0.10 |
| 30 | 5v1r_D_DC3_DG4 | B12 | BB04 | 64 | 0.34 |
| 31 | 5v1r_D_DG4_DG5 | B12 | BB04 | 17 | 0.35 |
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 | ||||
|---|---|---|---|---|