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

©Jiří Černý & Bohdan Schneider

MBD2 in complex with methylated DNA

Results of the assignment of 44 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
016c1a_C_DC1_DG2BBBBB00700.32BB00
026c1a_C_DG2_DG3BBBBB00750.31BB00
036c1a_C_DG3_DA4BB2BB07890.28BB07
046c1a_C_DA4_DA5BBBBB00730.18BB00
056c1a_C_DA5_DT6BBBBB01860.20BB01
066c1a_C_DT6_DG7BBBBB00350.38BB00
076c1a_C_DG7_DT8BBBBB00770.28BB00
086c1a_C_DT8_DA9BB2BB07860.26BB07
096c1a_C_DA9_DG10BBBBB00810.21BB00
106c1a_C_DG10_DG11B12BB04920.12BB04
116c1a_C_DG11_DC12B-ABA01820.25BA01
126c1a_D_DG1_DC2BBBBB00490.23BB00
136c1a_D_DC2_DC3BBBBB00810.20BB00
146c1a_D_DC3_DT4BBBBB00850.27BB00
156c1a_D_DT4_DA5B-ABA05690.28BA05
166c1a_D_DA5_5CM6BBBBB01260.44BB01
176c1a_D_5CM6_DA7B12BB04730.30BB04
186c1a_D_DA7_DT8B-ABA05850.14BA05
196c1a_D_DT8_DT9A-BAB01200.46AB01
206c1a_D_DT9_DC10BBBBB00710.36BB00
216c1a_D_DC10_DC11BBBBB0070.48BB00
226c1a_D_DC11_DG12B-ABA08390.36BA08
236c1a_G_DC1_DG2BBBBB00690.33BB00
246c1a_G_DG2_DG3BBBBB00740.31BB00
256c1a_G_DG3_DA4BB2BB07930.25BB07
266c1a_G_DA4_DA5BBBBB01710.23BB01
276c1a_G_DA5_DT6BBBBB01730.23BB01
286c1a_G_DT6_DG7BBBBB00550.35BB00
296c1a_G_DG7_DT8BBBBB00700.28BB00
306c1a_G_DT8_DA9BB2BB07880.31BB07
316c1a_G_DA9_DG10BBBBB00860.17BB00
326c1a_G_DG10_DG11B12BB04920.15BB04
336c1a_G_DG11_DC12B-ABA01620.31BA01
346c1a_H_DG1_DC2BBBBB00510.21BB00
356c1a_H_DC2_DC3BBBBB00610.19BB00
366c1a_H_DC3_DT4BBBBB00790.28BB00
376c1a_H_DT4_DA5B-ABA05720.28BA05
386c1a_H_DA5_5CM6BBBBB01360.43BB01
396c1a_H_5CM6_DA7BBBBB00540.36BB00
406c1a_H_DA7_DT8B-ABA05820.15BA05
416c1a_H_DT8_DT9A-BAB01230.47AB01
426c1a_H_DT9_DC10BBBBB00740.34BB00
436c1a_H_DC10_DC11B-ABA08550.39BA08
446c1a_H_DC11_DG12NANNANT00.50AA02

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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