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

©Jiří Černý & Bohdan Schneider

New Insights into the Role of DNA Shape on Its Recognition by p53 Proteins (complex p53DBD-LHG2)

Results of the assignment of 19 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
015mcu_C_DG1_DG2BBBBB00810.28BB00
025mcu_C_DG2_DG3B-ABA05870.26BA05
035mcu_C_DG3_DC4BBBBB00420.46BB00
045mcu_C_DC4_IGU5NANNANT00.69AA01
055mcu_C_IGU5_DT6NANNANT00.53BBS1
065mcu_C_DT6_DG7BB2BB07450.37BB07
075mcu_C_DG7_DC8BBBBB00880.19BB00
085mcu_C_DC8_DC9B12BB04800.17BB04
095mcu_C_DC9_DC10B-ABA05380.15BA05
105mcu_C_DC10_DG11A-BAB01690.20AB01
115mcu_C_DG11_DG12BBBBB00830.27BB00
125mcu_C_DG12_DG13B-ABA05850.26BA05
135mcu_C_DG13_DC14BBBBB00420.46BB00
145mcu_C_DC14_IGU15NANNANT00.68AA01
155mcu_C_IGU15_DT16NANNANT00.53BBS1
165mcu_C_DT16_DG17BB2BB07510.34BB07
175mcu_C_DG17_DC18BBBBB00850.20BB00
185mcu_C_DC18_DC19B12BB04660.19BB04
195mcu_C_DC19_DC20B-ABA05400.15BA05

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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