Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
T7 DNA polymerase ternary complex with 8 oxo guanosine and dCMP at the elongation 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 32 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 | 1tkd_P_DC807_DG808 | A-B | AB05 | 89 | 0.23 |
| 02 | 1tkd_P_DG808_DA809 | B12 | BB04 | 75 | 0.31 |
| 03 | 1tkd_P_DA809_DC810 | BBB | BB00 | 77 | 0.24 |
| 04 | 1tkd_P_DC810_DG811 | B12 | BB04 | 94 | 0.14 |
| 05 | 1tkd_P_DG811_DG812 | B12 | BB04 | 87 | 0.23 |
| 06 | 1tkd_P_DG812_DC813 | BBB | BB00 | 68 | 0.25 |
| 07 | 1tkd_P_DC813_DC814 | BBw | BB02 | 76 | 0.14 |
| 08 | 1tkd_P_DC814_DA815 | BBw | BB11 | 89 | 0.25 |
| 09 | 1tkd_P_DA815_DG816 | BBw | BB02 | 49 | 0.31 |
| 10 | 1tkd_P_DG816_DT817 | BBw | BB02 | 81 | 0.26 |
| 11 | 1tkd_P_DT817_DG818 | BBw | BB02 | 87 | 0.19 |
| 12 | 1tkd_P_DG818_DC819 | BBB | BB00 | 92 | 0.19 |
| 13 | 1tkd_P_DC819_DC820 | NAN | NANT | 0 | 0.34 |
| 14 | 1tkd_P_DC820_DA821 | NAN | NANT | 0 | 0.34 |
| 15 | 1tkd_T_DC853_DA854 | NAN | NANT | 0 | 0.58 |
| 16 | 1tkd_T_DA854_8OG855 | NAN | NANT | 0 | 0.67 |
| 17 | 1tkd_T_8OG855_DT856 | BBB | BB01 | 43 | 0.27 |
| 18 | 1tkd_T_DT856_DG857 | NAN | NANT | 0 | 0.46 |
| 19 | 1tkd_T_DG857_DG858 | BBw | BB16 | 41 | 0.71 |
| 20 | 1tkd_T_DG858_DC859 | BBB | BB00 | 84 | 0.22 |
| 21 | 1tkd_T_DC859_DA860 | B12 | BB04 | 89 | 0.16 |
| 22 | 1tkd_T_DA860_DC861 | BBB | BB00 | 78 | 0.28 |
| 23 | 1tkd_T_DC861_DT862 | BBB | BB00 | 79 | 0.30 |
| 24 | 1tkd_T_DT862_DG863 | BBB | BB00 | 92 | 0.21 |
| 25 | 1tkd_T_DG863_DG864 | BBw | BB02 | 50 | 0.39 |
| 26 | 1tkd_T_DG864_DC865 | BBB | BB00 | 60 | 0.27 |
| 27 | 1tkd_T_DC865_DC866 | BBB | BB00 | 90 | 0.15 |
| 28 | 1tkd_T_DC866_DG867 | B12 | BB04 | 88 | 0.23 |
| 29 | 1tkd_T_DG867_DT868 | B12 | BB04 | 87 | 0.19 |
| 30 | 1tkd_T_DT868_DC869 | BBB | BB00 | 82 | 0.28 |
| 31 | 1tkd_T_DC869_DG870 | B12 | BB04 | 70 | 0.29 |
| 32 | 1tkd_T_DG870_DT871 | BBB | BB00 | 28 | 0.49 |
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
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| Color by conformation group (pyramids) | |
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| visible |
| Color by NtC (balls) |
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| B-A | ||||
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| B | ||||
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