Conformers:
ABBIImiBZICOPNSYNN
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CO-CRYSTAL STRUCTURE OF HUMAN YY1 ZINC FINGER DOMAIN BOUND TO THE ADENO-ASSOCIATED VIRUS P5 INITIATOR ELEMENT
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 38 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 | 1ubd_A_DA1_DG2 | NAN | NANT | 0 | 0.85 |
| 02 | 1ubd_A_DG2_DG3 | BB2 | BB07 | 10 | 0.31 |
| 03 | 1ubd_A_DG3_DG4 | BBB | BB01 | 7 | 0.49 |
| 04 | 1ubd_A_DG4_DT5 | NAN | NANT | 0 | 0.44 |
| 05 | 1ubd_A_DT5_DC6 | A-B | AB03 | 54 | 0.27 |
| 06 | 1ubd_A_DC6_DT7 | BBB | BB00 | 45 | 0.34 |
| 07 | 1ubd_A_DT7_DC8 | NAN | NANT | 0 | 0.47 |
| 08 | 1ubd_A_DC8_DC9 | A-B | AB03 | 72 | 0.33 |
| 09 | 1ubd_A_DC9_DA10 | A-B | AB03 | 43 | 0.24 |
| 10 | 1ubd_A_DA10_DT11 | B-A | BA05 | 66 | 0.32 |
| 11 | 1ubd_A_DT11_DT12 | A-B | AB01 | 17 | 0.42 |
| 12 | 1ubd_A_DT12_DT13 | BBB | BB00 | 91 | 0.16 |
| 13 | 1ubd_A_DT13_DT14 | BBB | BB01 | 36 | 0.26 |
| 14 | 1ubd_A_DT14_DG15 | NAN | NANT | 0 | 0.28 |
| 15 | 1ubd_A_DG15_DA16 | BBw | BB02 | 6 | 0.47 |
| 16 | 1ubd_A_DA16_DA17 | NAN | NANT | 0 | 0.62 |
| 17 | 1ubd_A_DA17_DG18 | BBw | BB03 | 44 | 0.34 |
| 18 | 1ubd_A_DG18_DC19 | BBB | BB00 | 21 | 0.45 |
| 19 | 1ubd_A_DC19_DG20 | NAN | NANT | 0 | 1.00 |
| 20 | 1ubd_B_DC21_DG22 | NAN | NANT | 0 | 1.03 |
| 21 | 1ubd_B_DG22_DC23 | NAN | NANT | 0 | 0.69 |
| 22 | 1ubd_B_DC23_DT24 | NAN | NANT | 0 | 0.82 |
| 23 | 1ubd_B_DT24_DT25 | NAN | NANT | 0 | 0.67 |
| 24 | 1ubd_B_DT25_DC26 | NAN | NANT | 0 | 0.37 |
| 25 | 1ubd_B_DC26_DA27 | NAN | NANT | 0 | 0.36 |
| 26 | 1ubd_B_DA27_DA28 | B12 | BB04 | 63 | 0.28 |
| 27 | 1ubd_B_DA28_DA29 | BBB | BB00 | 55 | 0.30 |
| 28 | 1ubd_B_DA29_DA30 | B-A | BA01 | 16 | 0.26 |
| 29 | 1ubd_B_DA30_DT31 | A-B | AB03 | 48 | 0.42 |
| 30 | 1ubd_B_DT31_DG32 | NAN | NANT | 0 | 0.44 |
| 31 | 1ubd_B_DG32_DG33 | BBB | BB00 | 31 | 0.34 |
| 32 | 1ubd_B_DG33_DA34 | BBw | BB02 | 34 | 0.40 |
| 33 | 1ubd_B_DA34_DG35 | BBB | BB00 | 36 | 0.34 |
| 34 | 1ubd_B_DG35_DA36 | BB2 | BB07 | 20 | 0.21 |
| 35 | 1ubd_B_DA36_DC37 | NAN | NANT | 0 | 0.38 |
| 36 | 1ubd_B_DC37_DC38 | NAN | NANT | 0 | 0.59 |
| 37 | 1ubd_B_DC38_DC39 | NAN | NANT | 0 | 0.55 |
| 38 | 1ubd_B_DC39_DT40 | NAN | NANT | 0 | 0.56 |
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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