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

©Jiří Černý & Bohdan Schneider

Dodecamer structure of 5-formylcytosine containing DNA

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
014qc7_A_DC1_DG2B12BB04360.18BB04
024qc7_A_DG2_DC3B-ABA05820.26BA05
034qc7_A_DC3_DG4A-BAB01700.07AB01
044qc7_A_DG4_DA5BBBBB00920.15BB00
054qc7_A_DA5_DA6BBBBB00870.19BB00
064qc7_A_DA6_DT7BBBBB00460.18BB00
074qc7_A_DT7_DT8BBBBB00600.23BB00
084qc7_A_DT8_5FC9BBBBB01900.14BB01
094qc7_A_5FC9_DG10BBBBB00550.25BB00
104qc7_A_DG10_DC11BB2BB07780.35BB07
114qc7_A_DC11_DG12B-ABA05550.29BA05
124qc7_B_DC13_DG14BB2BB07450.29BB07
134qc7_B_DG14_DC15B-ABA05640.33BA05
144qc7_B_DC15_DG16A-BAB01330.20AB01
154qc7_B_DG16_DA17BBBBB00710.29BB00
164qc7_B_DA17_DA18BBBBB01720.17BB01
174qc7_B_DA18_DT19BBBBB01780.20BB01
184qc7_B_DT19_DT20BBBBB00470.26BB00
194qc7_B_DT20_5FC21B-ABA05900.17BA05
204qc7_B_5FC21_DG22A-BAB03820.26AB03
214qc7_B_DG22_DC23B-ABA17840.25BA17
224qc7_B_DC23_DG24B-ABA05420.36BA05

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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