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Conformers: ABBIImiBZICOPNSYNN
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APE1 phosphorothioate substrate complex with abasic ribonucleotide DNA

Results of the assignment of 38 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 viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
step numberStep nameCANANtCconfalrmsd
017lpi_C_DG1_DG2BB2BB07800.32 BB07
027lpi_C_DG2_DA3BBBBB00850.16 BB00
037lpi_C_DA3_DT4BBBBB01850.15 BB01
047lpi_C_DT4_DC5B-ABA01150.23 BA01
057lpi_C_DC5_DC6A-BAB01450.38 AB01
067lpi_C_DC6_DG7B12BB04620.16 BB04
077lpi_C_DG7_DT8BBBBB00230.27 BB00
087lpi_C_DT8_DC9BBBBB00710.17 BB00
097lpi_C_DC9_DG10B12BB04740.28 BB04
107lpi_C_DG10_DA11NANNANT00.46 BB00
117lpi_C_DA11_DG12NANNANT00.88 AB02
127lpi_C_DG12_DC13B-ABA10210.36 BA10
137lpi_C_DC13_DG14BBBBB01350.32 BB01
147lpi_C_DG14_DC15BBBBB00820.22 BB00
157lpi_C_DC15_DA16BBBBB00640.34 BB00
167lpi_C_DA16_DT17BBBBB00840.17 BB00
177lpi_C_DT17_DC18BBBBB00140.18 BB00
187lpi_C_DC18_DA19BBBBB00410.24 BB00
197lpi_C_DA19_DG20NANNANT00.29 BA10
207lpi_C_DG20_DC21BBwBB16450.49 BB16
217lpi_E_DG1_DC2B-ABA08590.40 BA08
227lpi_E_DC2_DT3BBBBB01470.34 BB01
237lpi_E_DT3_DG4BBBBB00370.34 BB00
247lpi_E_DG4_DA5B12BB04530.17 BB04
257lpi_E_DA5_DT6BBBBB01800.20 BB01
267lpi_E_DT6_DG7BBBBB00280.21 BB00
277lpi_E_DG7_DC8BBBBB00470.23 BB00
287lpi_E_DC8_DG9BBBBB00650.18 BB00
297lpi_E_DG9_DC10BBBBB00830.23 BB00
307lpi_E_DC12_DG13BB2BB07880.20 BB07
317lpi_E_DG13_DA14BBBBB00870.18 BB00
327lpi_E_DA14_DC15BBBBB00890.22 BB00
337lpi_E_DC15_DG16B12BB04520.24 BB04
347lpi_E_DG16_DG17B12BB04760.17 BB04
357lpi_E_DG17_DA18BBBBB00590.38 BB00
367lpi_E_DA18_DT19BBBBB00210.19 BB00
377lpi_E_DT19_DC20miBBB10350.23 BB10
387lpi_E_DC20_DC21NANNANT00.48 BB08

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.
Best NtC fitted to input structure.

Restraints

Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]

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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