Click the Summary/Torsions/Similar/... tabs for more details.
Center view on step or molecule.
Show reference and contacts model altloc

Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.

©Jiří Černý & Bohdan Schneider

Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis

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.

Your browser does not support the HTML5 canvas tag.
Your browser does not support the HTML5 canvas tag.
Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
012agq_B_DG1_DG2BBBBB00850.18BB00
022agq_B_DG2_DC3B12BB04690.18BB04
032agq_B_DC3_DT4BBBBB00870.24BB00
042agq_B_DT4_DA5BBBBB00890.32BB00
052agq_B_DA5_DC6BBBBB00900.14BB00
062agq_B_DC6_DA7BBBBB00890.23BB00
072agq_B_DA7_DG8B12BB04780.20BB04
082agq_B_DG8_DG9BBBBB00800.26BB00
092agq_B_DG9_DA10BBBBB00710.16BB00
102agq_B_DA10_DC11BBBBB00640.25BB00
112agq_B_DC11_DT12BBBBB00830.20BB00
122agq_C_DT1_DC2NANNANT01.07OP21
132agq_C_DC2_DA3BBBBB00360.61BB00
142agq_C_DA3_DT4NANNANT00.55OP06
152agq_C_DT4_DG5BBBBB00620.35BB00
162agq_C_DG5_DA6BBBBB00740.30BB00
172agq_C_DA6_DG7BBBBB00760.18BB00
182agq_C_DG7_DT8BBBBB00680.34BB00
192agq_C_DT8_DC9BBBBB00820.18BB00
202agq_C_DC9_DC10BBBBB00900.17BB00
212agq_C_DC10_DT11BBBBB00920.16BB00
222agq_C_DT11_DG12B12BB04940.18BB04
232agq_C_DG12_DT13BBBBB00960.12BB00
242agq_C_DT13_DA14BBBBB00910.14BB00
252agq_C_DA14_DG15B12BB04810.21BB04
262agq_C_DG15_DC16BBBBB00870.18BB00
272agq_C_DC16_DC17BBBBB00190.37BB00

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Definition of torsion angles
step:
Table of conformers

δ1ε1ζ1α2β2γ2δ2χ1χ2μNNCC
step_torsions
ntC_average
Δ torsions
torsion scores

commentsstep confal = NaN
cartesian RMSD = NaN Å
pseudorotation: NA
details: NA

Similarity of step to class averages

Download

Results as csv or json file.
Restraints file for Phenix (steps with RMSD <= 0.5Å)
Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Best NtC fitted to input structure.

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

Return up to random steps in PDB structures ( include large structures )

Show



Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N