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

©Jiří Černý & Bohdan Schneider

STRUCTURE OF A B-DNA DODECAMER. CONFORMATION AND DYNAMICS

Results of the assignment of 22 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
011bna_A_DC1_DG2B12BB04320.37BB04
021bna_A_DG2_DC3B-ABA05800.31BA05
031bna_A_DC3_DG4A-BAB01350.18AB01
041bna_A_DG4_DA5B12BB04150.22BB04
051bna_A_DA5_DA6BBBBB01670.19BB01
061bna_A_DA6_DT7B-ABA05690.27BA05
071bna_A_DT7_DT8BBBBB01400.28BB01
081bna_A_DT8_DC9BBBBB01660.25BB01
091bna_A_DC9_DG10BBBBB00760.37BB00
101bna_A_DG10_DC11BB2BB07690.39BB07
111bna_A_DC11_DG12BBBBB01540.38BB01
121bna_B_DC13_DG14BBBBB00480.28BB00
131bna_B_DG14_DC15B-ABA05580.29BA05
141bna_B_DC15_DG16A-BAB01630.26AB01
151bna_B_DG16_DA17BBBBB00830.23BB00
161bna_B_DA17_DA18BBBBB00880.13BB00
171bna_B_DA18_DT19BBBBB01630.20BB01
181bna_B_DT19_DT20BBBBB01660.18BB01
191bna_B_DT20_DC21BBBBB01770.14BB01
201bna_B_DC21_DG22BBBBB00150.27BB00
211bna_B_DG22_DC23B-ABA17900.18BA17
221bna_B_DC23_DG24B-ABA05370.37BA05

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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