Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
DNA Polymerase beta with a terminated gapped DNA substrate and ddCTP with sodium in the catalytic 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 30 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 | 2fmp_T_DC1_DC2 | BBB | BB00 | 59 | 0.35 |
| 02 | 2fmp_T_DC2_DG3 | BB2 | BB07 | 81 | 0.17 |
| 03 | 2fmp_T_DG3_DA4 | B-A | BA05 | 73 | 0.20 |
| 04 | 2fmp_T_DA4_DC5 | BBB | BB01 | 35 | 0.21 |
| 05 | 2fmp_T_DC5_DG6 | NAN | NANT | 0 | 1.22 |
| 06 | 2fmp_T_DG6_DG7 | B-A | BA05 | 63 | 0.21 |
| 07 | 2fmp_T_DG7_DC8 | BBB | BB00 | 33 | 0.26 |
| 08 | 2fmp_T_DC8_DG9 | B12 | BB04 | 41 | 0.38 |
| 09 | 2fmp_T_DG9_DC10 | BBB | BB00 | 79 | 0.21 |
| 10 | 2fmp_T_DC10_DA11 | BBB | BB00 | 89 | 0.21 |
| 11 | 2fmp_T_DA11_DT12 | BBB | BB01 | 90 | 0.17 |
| 12 | 2fmp_T_DT12_DC13 | B-A | BA05 | 64 | 0.26 |
| 13 | 2fmp_T_DC13_DA14 | A-B | AB01 | 41 | 0.20 |
| 14 | 2fmp_T_DA14_DG15 | BBB | BB00 | 80 | 0.17 |
| 15 | 2fmp_T_DG15_DC16 | BBB | BB01 | 69 | 0.20 |
| 16 | 2fmp_P_DG1_DC2 | BBB | BB00 | 70 | 0.25 |
| 17 | 2fmp_P_DC2_DT3 | BBB | BB01 | 38 | 0.19 |
| 18 | 2fmp_P_DT3_DG4 | BBB | BB01 | 37 | 0.28 |
| 19 | 2fmp_P_DG4_DA5 | BBB | BB00 | 73 | 0.26 |
| 20 | 2fmp_P_DA5_DT6 | BBB | BB01 | 91 | 0.14 |
| 21 | 2fmp_P_DT6_DG7 | BBB | BB01 | 81 | 0.16 |
| 22 | 2fmp_P_DG7_DC8 | B-A | BA05 | 79 | 0.10 |
| 23 | 2fmp_P_DC8_DG9 | B-A | BA05 | 25 | 0.34 |
| 24 | 2fmp_D_DG1_DT2 | BBB | BB01 | 77 | 0.23 |
| 25 | 2fmp_D_DT2_DC.A3 | B-A | BA05 | 74 | 0.24 |
| 26 | 2fmp_D_DT2_DC.B3 | BBB | BB01 | 55 | 0.28 |
| 27 | 2fmp_D_DC.A3_DG.A4 | A-B | AB01 | 64 | 0.23 |
| 28 | 2fmp_D_DC.B3_DG.B4 | BBB | BB00 | 86 | 0.26 |
| 29 | 2fmp_D_DG.A4_DG5 | BBB | BB00 | 73 | 0.27 |
| 30 | 2fmp_D_DG.B4_DG5 | BBB | BB00 | 59 | 0.34 |
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 | ||||
|---|---|---|---|---|