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

©Jiří Černý & Bohdan Schneider

Crystal structure of E.coli Pol II-abasic DNA binary complex

Results of the assignment of 23 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
013k5n_T_DT808_DA809NANNANT00.45BB07
023k5n_T_DA809_DC810NANNANT00.48BB17
033k5n_T_DC810_DG811NANNANT00.60AA01
043k5n_T_DG811_DC812NANNANT00.69AA04
053k5n_T_DC812_DT813AAAAA00100.58AA00
063k5n_T_DT813_DA814NANNANT00.42AB02
073k5n_T_DA814_DG815NANNANT00.33BB01
083k5n_T_DG815_DG816NANNANT00.42BA05
093k5n_T_DG816_DC817NANNANT00.39BB13
103k5n_T_DC817_DA818NANNANT00.98BA09
113k5n_T_DA818_DC819NANNANT00.51AA01
123k5n_T_DC819_DA820NANNANT00.98BB10
133k5n_P_DG901_DT902NANNANT00.65IC04
143k5n_P_DT902_DG903NANNANT00.78BB13
153k5n_P_DG903_DC904BBwBB16250.52BB16
163k5n_P_DC904_DC905NANNANT00.41BA05
173k5n_P_DC905_DT906NANNANT00.41BB14
183k5n_P_DT906_DA907NANNANT00.43BB03
193k5n_P_DA907_DG908B-ABA05140.37BA05
203k5n_P_DG908_DC909NANNANT00.49AA10
213k5n_P_DC909_DG910NANNANT00.48AB04
223k5n_P_DG910_DT911BBwBB17200.47BB17
233k5n_P_DT911_DA912B-ABA17410.32BA17

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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