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

©Jiří Černý & Bohdan Schneider

Crystal structure of d(GCGAGAGC): the DNA quadruplex structure split from the octaplex

Results of the assignment of 14 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

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Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
011v3n_A_DG1_CBR2B-ABA05660.28BA05
021v3n_A_CBR2_DG3NANNANT00.51BB00
031v3n_A_DG3_DA4B-ABA01420.35BA01
041v3n_A_DA4_DG5ICLIC04240.55IC04
051v3n_A_DG5_DA6NANNANT00.95IC03
061v3n_A_DA6_DG7BBBBB00120.50BB00
071v3n_A_DG7_DC8B-ABA08850.23BA08
081v3n_B_DG9_CBR10BBBBB00840.17BB00
091v3n_B_CBR10_DG11NANNANT00.56BB00
101v3n_B_DG11_DA12B-ABA08840.20BA08
111v3n_B_DA12_DG13NANNANT00.45IC03
121v3n_B_DG13_DA14NANNANT01.94OP19
131v3n_B_DA14_DG15NANNANT00.69BA05
141v3n_B_DG15_DC16AAAAA02470.47AA02

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).

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