Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Ring-Opening of the -OH-PdG Adduct in Ternary Complexes with the Sulfolobus solfataricus DNA polymerase Dpo4
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 27 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 | 4jv0_B_DT4_KAG5 | B-A | BA08 | 44 | 0.55 |
| 02 | 4jv0_B_KAG5_DG6 | BBB | BB01 | 23 | 0.34 |
| 03 | 4jv0_B_DG6_DA7 | BBB | BB00 | 30 | 0.40 |
| 04 | 4jv0_B_DA7_DA8 | B-A | BA08 | 47 | 0.41 |
| 05 | 4jv0_B_DA8_DT9 | BBB | BB01 | 45 | 0.23 |
| 06 | 4jv0_B_DT9_DC10 | B-A | BA08 | 75 | 0.36 |
| 07 | 4jv0_B_DC10_DC11 | A-B | AB03 | 84 | 0.38 |
| 08 | 4jv0_B_DC11_DT12 | miB | BB10 | 78 | 0.25 |
| 09 | 4jv0_B_DT12_DT13 | BBB | BB01 | 78 | 0.17 |
| 10 | 4jv0_B_DT13_DC14 | B-A | BA05 | 52 | 0.25 |
| 11 | 4jv0_B_DC14_DC15 | B-A | BA05 | 9 | 0.28 |
| 12 | 4jv0_B_DC15_DC16 | A-B | AB01 | 14 | 0.38 |
| 13 | 4jv0_B_DC16_DC17 | BBB | BB00 | 40 | 0.31 |
| 14 | 4jv0_B_DC17_DC18 | NAN | NANT | 0 | 0.51 |
| 15 | 4jv0_C_DG19_DG20 | A-B | AB03 | 32 | 0.34 |
| 16 | 4jv0_C_DG20_DG21 | miB | BB15 | 41 | 0.42 |
| 17 | 4jv0_C_DG21_DG22 | BBB | BB00 | 29 | 0.25 |
| 18 | 4jv0_C_DG22_DG23 | NAN | NANT | 0 | 0.29 |
| 19 | 4jv0_C_DG23_DA24 | NAN | NANT | 0 | 0.46 |
| 20 | 4jv0_C_DA24_DA25 | BBB | BB00 | 49 | 0.25 |
| 21 | 4jv0_C_DA25_DG26 | B12 | BB04 | 65 | 0.31 |
| 22 | 4jv0_C_DG26_DG27 | B12 | BB04 | 11 | 0.35 |
| 23 | 4jv0_C_DG27_DA28 | BBB | BB00 | 41 | 0.22 |
| 24 | 4jv0_C_DA28_DT29 | BBB | BB01 | 35 | 0.26 |
| 25 | 4jv0_C_DT29_DT30 | BBB | BB01 | 41 | 0.23 |
| 26 | 4jv0_C_DT30_DC31 | BBB | BB01 | 63 | 0.26 |
| 27 | 4jv0_C_DC31_DC32 | BBB | BB00 | 23 | 0.32 |
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 | ||||
|---|---|---|---|---|