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

Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-propyl Thymidine (T*)

Results of the assignment of 18 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
011y8v_A_DG1_DC2AAAAA00730.20AA00
021y8v_A_DC2_DG3AAwAA01920.10AA01
031y8v_A_DG3_DT4AAAAA00240.35AA00
041y8v_A_DT4_DA5AAwAA01880.22AA01
051y8v_A_DA5_P2T6AAAAA00920.11AA00
061y8v_A_P2T6_DA7AAAAA00940.09AA00
071y8v_A_DA7_DC8AAAAA00950.12AA00
081y8v_A_DC8_DG9AAAAA00890.15AA00
091y8v_A_DG9_DC10AAAAA00910.17AA00
101y8v_B_DG11_DC12AAAAA00880.12AA00
111y8v_B_DC12_DG13AAAAA00890.21AA00
121y8v_B_DG13_DT14AAAAA00830.20AA00
131y8v_B_DT14_DA15AAAAA00850.18AA00
141y8v_B_DA15_P2T16AAAAA00940.14AA00
151y8v_B_P2T16_DA17AAAAA00910.12AA00
161y8v_B_DA17_DC18AAAAA00760.20AA00
171y8v_B_DC18_DG19AAAAA00850.24AA00
181y8v_B_DG19_DC20AAAAA00760.23AA00

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