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Conformers: ABBIImiBZICOPNSYNN
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NMR solution structure of a DNA minidumbbell containing an abasic bulge between two CCTG repeats

Results of the assignment of 120 detected steps in 20 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
0016m6k-m10_A_DC1_DC2NANNANT00.96 OP04
0026m6k-m11_A_DC1_DC2NANNANT00.92 OP04
0036m6k-m12_A_DC1_DC2NANNANT00.91 OP04
0046m6k-m13_A_DC1_DC2NANNANT00.91 OP04
0056m6k-m14_A_DC1_DC2NANNANT00.89 OP04
0066m6k-m15_A_DC1_DC2NANNANT00.90 OP04
0076m6k-m16_A_DC1_DC2NANNANT00.92 OP04
0086m6k-m17_A_DC1_DC2NANNANT00.93 OP04
0096m6k-m18_A_DC1_DC2NANNANT00.92 OP04
0106m6k-m19_A_DC1_DC2NANNANT01.38 BB17
0116m6k-m1_A_DC1_DC2NANNANT00.93 OP04
0126m6k-m20_A_DC1_DC2NANNANT00.93 OP04
0136m6k-m2_A_DC1_DC2NANNANT00.92 OP04
0146m6k-m3_A_DC1_DC2NANNANT00.91 OP04
0156m6k-m4_A_DC1_DC2NANNANT00.90 OP04
0166m6k-m5_A_DC1_DC2NANNANT00.93 OP04
0176m6k-m6_A_DC1_DC2NANNANT00.95 OP04
0186m6k-m7_A_DC1_DC2NANNANT00.94 OP04
0196m6k-m8_A_DC1_DC2NANNANT00.94 OP04
0206m6k-m9_A_DC1_DC2NANNANT00.90 OP04
0216m6k-m10_A_DC2_DT3NANNANT00.98 OP12
0226m6k-m11_A_DC2_DT3NANNANT00.99 OP12
0236m6k-m12_A_DC2_DT3NANNANT00.99 OP12
0246m6k-m13_A_DC2_DT3NANNANT01.00 OP12
0256m6k-m14_A_DC2_DT3NANNANT01.14 OP20
0266m6k-m15_A_DC2_DT3NANNANT01.11 OP20
0276m6k-m16_A_DC2_DT3NANNANT01.11 OP20
0286m6k-m17_A_DC2_DT3NANNANT01.16 OP20
0296m6k-m18_A_DC2_DT3NANNANT00.98 OP12
0306m6k-m19_A_DC2_DT3NANNANT01.10 OP20
0316m6k-m1_A_DC2_DT3NANNANT00.97 OP12
0326m6k-m20_A_DC2_DT3NANNANT00.97 OP12
0336m6k-m2_A_DC2_DT3NANNANT01.12 OP20
0346m6k-m3_A_DC2_DT3NANNANT00.98 OP12
0356m6k-m4_A_DC2_DT3NANNANT01.12 OP20
0366m6k-m5_A_DC2_DT3NANNANT01.11 OP20
0376m6k-m6_A_DC2_DT3NANNANT01.01 OP12
0386m6k-m7_A_DC2_DT3NANNANT01.15 OP20
0396m6k-m8_A_DC2_DT3NANNANT00.96 OP12
0406m6k-m9_A_DC2_DT3NANNANT01.14 OP20
0416m6k-m10_A_DT3_DG4NANNANT01.50 OP19
0426m6k-m11_A_DT3_DG4NANNANT01.44 OP19
0436m6k-m12_A_DT3_DG4NANNANT01.42 OP19
0446m6k-m13_A_DT3_DG4NANNANT01.41 OP19
0456m6k-m14_A_DT3_DG4NANNANT01.44 OP19
0466m6k-m15_A_DT3_DG4NANNANT01.45 OP19
0476m6k-m16_A_DT3_DG4NANNANT01.44 OP19
0486m6k-m17_A_DT3_DG4NANNANT01.46 OP19
0496m6k-m18_A_DT3_DG4NANNANT01.48 OP19
0506m6k-m19_A_DT3_DG4NANNANT01.42 OP19
0516m6k-m1_A_DT3_DG4NANNANT01.43 OP19
0526m6k-m20_A_DT3_DG4NANNANT01.44 OP19
0536m6k-m2_A_DT3_DG4NANNANT01.42 OP19
0546m6k-m3_A_DT3_DG4NANNANT01.43 OP19
0556m6k-m4_A_DT3_DG4NANNANT01.39 OP19
0566m6k-m5_A_DT3_DG4NANNANT01.48 OP19
0576m6k-m6_A_DT3_DG4NANNANT01.48 OP19
0586m6k-m7_A_DT3_DG4NANNANT01.47 OP19
0596m6k-m8_A_DT3_DG4NANNANT01.47 OP19
0606m6k-m9_A_DT3_DG4NANNANT01.47 OP19
0616m6k-m10_A_DC6_DC7NANNANT01.20 OP25
0626m6k-m11_A_DC6_DC7NANNANT01.19 OP03
0636m6k-m12_A_DC6_DC7NANNANT01.36 AA11
0646m6k-m13_A_DC6_DC7NANNANT01.02 OP04
0656m6k-m14_A_DC6_DC7NANNANT01.02 OP04
0666m6k-m15_A_DC6_DC7NANNANT00.96 OP04
0676m6k-m16_A_DC6_DC7NANNANT00.97 OP04
0686m6k-m17_A_DC6_DC7NANNANT01.36 AA11
0696m6k-m18_A_DC6_DC7NANNANT01.02 OP04
0706m6k-m19_A_DC6_DC7NANNANT00.97 OP04
0716m6k-m1_A_DC6_DC7NANNANT01.18 OP03
0726m6k-m20_A_DC6_DC7NANNANT01.01 OP04
0736m6k-m2_A_DC6_DC7NANNANT01.22 OP03
0746m6k-m3_A_DC6_DC7NANNANT01.01 OP04
0756m6k-m4_A_DC6_DC7NANNANT01.09 OP04
0766m6k-m5_A_DC6_DC7NANNANT01.00 OP04
0776m6k-m6_A_DC6_DC7NANNANT01.36 AA12
0786m6k-m7_A_DC6_DC7NANNANT01.36 AA11
0796m6k-m8_A_DC6_DC7NANNANT01.01 OP04
0806m6k-m9_A_DC6_DC7NANNANT01.53 AA12
0816m6k-m10_A_DC7_DT8NANNANT01.62 AB02
0826m6k-m11_A_DC7_DT8NANNANT01.05 OP20
0836m6k-m12_A_DC7_DT8NANNANT00.73 IC02
0846m6k-m13_A_DC7_DT8NANNANT01.10 OP20
0856m6k-m14_A_DC7_DT8NANNANT01.09 OP20
0866m6k-m15_A_DC7_DT8NANNANT01.15 OP20
0876m6k-m16_A_DC7_DT8NANNANT01.56 AB02
0886m6k-m17_A_DC7_DT8NANNANT00.74 IC02
0896m6k-m18_A_DC7_DT8NANNANT01.10 OP20
0906m6k-m19_A_DC7_DT8NANNANT01.15 OP20
0916m6k-m1_A_DC7_DT8NANNANT01.09 OP20
0926m6k-m20_A_DC7_DT8NANNANT01.11 OP20
0936m6k-m2_A_DC7_DT8NANNANT00.89 OP12
0946m6k-m3_A_DC7_DT8NANNANT01.08 OP20
0956m6k-m4_A_DC7_DT8NANNANT00.89 OP12
0966m6k-m5_A_DC7_DT8NANNANT01.09 OP20
0976m6k-m6_A_DC7_DT8NANNANT00.65 IC06
0986m6k-m7_A_DC7_DT8NANNANT00.75 IC02
0996m6k-m8_A_DC7_DT8NANNANT01.07 OP20
1006m6k-m9_A_DC7_DT8NANNANT01.52 BB10
1016m6k-m10_A_DT8_DG9NANNANT01.61 OP19
1026m6k-m11_A_DT8_DG9NANNANT01.40 OP19
1036m6k-m12_A_DT8_DG9NANNANT01.54 OP19
1046m6k-m13_A_DT8_DG9NANNANT01.39 OP19
1056m6k-m14_A_DT8_DG9NANNANT01.37 BB08
1066m6k-m15_A_DT8_DG9NANNANT01.46 OP19
1076m6k-m16_A_DT8_DG9NANNANT01.91 BB17
1086m6k-m17_A_DT8_DG9NANNANT01.54 OP19
1096m6k-m18_A_DT8_DG9NANNANT01.41 OP19
1106m6k-m19_A_DT8_DG9NANNANT01.50 OP19
1116m6k-m1_A_DT8_DG9NANNANT01.50 OP19
1126m6k-m20_A_DT8_DG9NANNANT01.39 OP19
1136m6k-m2_A_DT8_DG9NANNANT01.31 OP19
1146m6k-m3_A_DT8_DG9NANNANT01.40 OP19
1156m6k-m4_A_DT8_DG9NANNANT01.30 OP19
1166m6k-m5_A_DT8_DG9NANNANT01.40 OP19
1176m6k-m6_A_DT8_DG9NANNANT01.79 OP19
1186m6k-m7_A_DT8_DG9NANNANT01.51 OP19
1196m6k-m8_A_DT8_DG9NANNANT01.37 OP19
1206m6k-m9_A_DT8_DG9NANNANT01.38 OP19

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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