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

©Jiří Černý & Bohdan Schneider

Crystal Structure of Dpo4 in complex with DNA containing the major cisplatin lesion

Results of the assignment of 24 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
013m9m_P_DG1_DG2miBBB15900.28BB15
023m9m_P_DG2_DG3B12BB04660.19BB04
033m9m_P_DG3_DG4BBBBB00440.24BB00
043m9m_P_DG4_DG5BBwBB11730.33BB11
053m9m_P_DG5_DA6NANNANT00.91BB03
063m9m_P_DA6_DA7NANNANT00.54BB11
073m9m_P_DA7_DG8miBBB10160.44BB10
083m9m_P_DG8_DG9NANNANT00.54BB03
093m9m_P_DG9_DA10NANNANT00.77BB15
103m9m_P_DA10_DA11BBBBB00330.44BB00
113m9m_P_DA11_DA12BBBBB00280.41BB00
123m9m_T_DG3_DG4NANNANT01.24BB02
133m9m_T_DC5_DT6SYNBBS1210.38BBS1
143m9m_T_DT6_DT7B12BB04710.31BB04
153m9m_T_DT7_DT8NANNANT00.50BB02
163m9m_T_DT8_DC9NANNANT00.66BB13
173m9m_T_DC9_DC10BBwBB02200.49BB02
183m9m_T_DC10_DT11NANNANT00.53BB15
193m9m_T_DT11_DT12NANNANT00.53BB08
203m9m_T_DT12_DC13BBBBB00540.34BB00
213m9m_T_DC13_DC14NANNANT00.58BB03
223m9m_T_DC14_DC15NANNANT00.49AB02
233m9m_T_DC15_DC16BBBBB00240.32BB00
243m9m_T_DC16_DC17NANNANT00.47BA08

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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