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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
Dodecamer DNA containing the synthetic base pair P-Z

Results of the assignment of 140 detected steps in 10 model(s), can be also downloaded as csv 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
0016i4o-m10_A_DC1_DG2BB2BB07160.52BB07
0026i4o-m1_A_DC1_DG2BB2BB07160.59BB07
0036i4o-m2_A_DC1_DG2BB2BB07140.59BB07
0046i4o-m3_A_DC1_DG2BB2BB0780.59BB07
0056i4o-m4_A_DC1_DG2NANNANT00.59BA17
0066i4o-m5_A_DC1_DG2BB2BB07270.55BB07
0076i4o-m6_A_DC1_DG2BB2BB07120.56BB07
0086i4o-m7_A_DC1_DG2NANNANT00.75BA17
0096i4o-m8_A_DC1_DG2BB2BB07120.54BB07
0106i4o-m9_A_DC1_DG2BB2BB07110.53BB07
0116i4o-m10_A_DG2_DA3BB2BB07550.31BB07
0126i4o-m1_A_DG2_DA3BB2BB07380.40BB07
0136i4o-m2_A_DG2_DA3BB2BB07520.33BB07
0146i4o-m3_A_DG2_DA3BB2BB07540.34BB07
0156i4o-m4_A_DG2_DA3BB2BB07510.29BB07
0166i4o-m5_A_DG2_DA3BB2BB07530.40BB07
0176i4o-m6_A_DG2_DA3BB2BB07600.29BB07
0186i4o-m7_A_DG2_DA3BB2BB07320.37BB07
0196i4o-m8_A_DG2_DA3BB2BB07590.31BB07
0206i4o-m9_A_DG2_DA3BB2BB07630.28BB07
0216i4o-m10_A_DA3_DT4BBBBB00840.24BB00
0226i4o-m1_A_DA3_DT4BBBBB00800.26BB00
0236i4o-m2_A_DA3_DT4BBBBB00770.17BB00
0246i4o-m3_A_DA3_DT4BBBBB00830.24BB00
0256i4o-m4_A_DA3_DT4BBBBB00820.27BB00
0266i4o-m5_A_DA3_DT4BBBBB00810.21BB00
0276i4o-m6_A_DA3_DT4BBBBB00860.21BB00
0286i4o-m7_A_DA3_DT4BBBBB00890.22BB00
0296i4o-m8_A_DA3_DT4BBBBB00820.20BB00
0306i4o-m9_A_DA3_DT4BBBBB00810.22BB00
0316i4o-m10_A_DT6_DA7BBBBB01480.28BB01
0326i4o-m1_A_DT6_DA7BBBBB01660.29BB01
0336i4o-m2_A_DT6_DA7BBBBB01370.35BB01
0346i4o-m3_A_DT6_DA7BBBBB01730.22BB01
0356i4o-m4_A_DT6_DA7B-ABA05550.37BA05
0366i4o-m5_A_DT6_DA7B-ABA05590.28BA05
0376i4o-m6_A_DT6_DA7B-ABA05500.38BA05
0386i4o-m7_A_DT6_DA7BBBBB01640.26BB01
0396i4o-m8_A_DT6_DA7BBBBB01670.26BB01
0406i4o-m9_A_DT6_DA7BBBBB00750.17BB00
0416i4o-m10_A_DA9_DT10miBBB12580.38BB12
0426i4o-m1_A_DA9_DT10B-ABA05870.18BA05
0436i4o-m2_A_DA9_DT10B-ABA01660.22BA01
0446i4o-m3_A_DA9_DT10B-ABA05820.16BA05
0456i4o-m4_A_DA9_DT10B-ABA01670.21BA01
0466i4o-m5_A_DA9_DT10B-ABA01710.19BA01
0476i4o-m6_A_DA9_DT10miBBB12870.20BB12
0486i4o-m7_A_DA9_DT10miBBB12780.30BB12
0496i4o-m8_A_DA9_DT10miBBB12740.35BB12
0506i4o-m9_A_DA9_DT10miBBB12780.37BB12
0516i4o-m10_A_DT10_DC11BBBBB00420.70BB00
0526i4o-m1_A_DT10_DC11AAAAA02650.50AA02
0536i4o-m2_A_DT10_DC11AAAAA00280.36AA00
0546i4o-m3_A_DT10_DC11NANNANT00.36AA00
0556i4o-m4_A_DT10_DC11AAAAA02500.49AA02
0566i4o-m5_A_DT10_DC11AAAAA02550.46AA02
0576i4o-m6_A_DT10_DC11BBBBB00200.79BB00
0586i4o-m7_A_DT10_DC11BBBBB00290.74BB00
0596i4o-m8_A_DT10_DC11BBBBB00380.70BB00
0606i4o-m9_A_DT10_DC11BBBBB00250.74BB00
0616i4o-m10_A_DC11_DG12NANNANT00.94BB15
0626i4o-m1_A_DC11_DG12A-BAB01700.33AB01
0636i4o-m2_A_DC11_DG12A-BAB01390.51AB01
0646i4o-m3_A_DC11_DG12A-BAB01390.44AB01
0656i4o-m4_A_DC11_DG12A-BAB01470.40AB01
0666i4o-m5_A_DC11_DG12A-BAB01250.52AB01
0676i4o-m6_A_DC11_DG12NANNANT00.96BB15
0686i4o-m7_A_DC11_DG12NANNANT00.92BB15
0696i4o-m8_A_DC11_DG12NANNANT01.00BB15
0706i4o-m9_A_DC11_DG12NANNANT00.99BB15
0716i4o-m10_B_DC13_DG14A-BAB01190.68AB01
0726i4o-m1_B_DC13_DG14BB2BB07230.51BB07
0736i4o-m2_B_DC13_DG14BB2BB07170.55BB07
0746i4o-m3_B_DC13_DG14BB2BB07110.52BB07
0756i4o-m4_B_DC13_DG14BB2BB07210.52BB07
0766i4o-m5_B_DC13_DG14NANNANT00.62BA17
0776i4o-m6_B_DC13_DG14BBBBB00180.55BB00
0786i4o-m7_B_DC13_DG14A-BAB01740.50AB01
0796i4o-m8_B_DC13_DG14BB1BB16260.44BB16
0806i4o-m9_B_DC13_DG14A-BAB01690.51AB01
0816i4o-m10_B_DG14_DA15BB2BB07510.29BB07
0826i4o-m1_B_DG14_DA15BB2BB07670.26BB07
0836i4o-m2_B_DG14_DA15BB2BB07520.34BB07
0846i4o-m3_B_DG14_DA15BB2BB07440.35BB07
0856i4o-m4_B_DG14_DA15BB2BB07520.34BB07
0866i4o-m5_B_DG14_DA15BB2BB07430.33BB07
0876i4o-m6_B_DG14_DA15BB2BB07620.35BB07
0886i4o-m7_B_DG14_DA15BB2BB07650.33BB07
0896i4o-m8_B_DG14_DA15BB2BB07550.31BB07
0906i4o-m9_B_DG14_DA15BB2BB07490.38BB07
0916i4o-m10_B_DA15_DT16BBBBB00660.27BB00
0926i4o-m1_B_DA15_DT16BBBBB00840.28BB00
0936i4o-m2_B_DA15_DT16BBBBB00850.13BB00
0946i4o-m3_B_DA15_DT16BBBBB00880.28BB00
0956i4o-m4_B_DA15_DT16BBBBB00850.23BB00
0966i4o-m5_B_DA15_DT16BBBBB00890.21BB00
0976i4o-m6_B_DA15_DT16BBBBB00910.18BB00
0986i4o-m7_B_DA15_DT16BBBBB00680.30BB00
0996i4o-m8_B_DA15_DT16BBBBB00850.25BB00
1006i4o-m9_B_DA15_DT16BBBBB00840.21BB00
1016i4o-m10_B_DT18_DA19B-ABA05710.37BA05
1026i4o-m1_B_DT18_DA19BBBBB01690.28BB01
1036i4o-m2_B_DT18_DA19B-ABA05270.47BA05
1046i4o-m3_B_DT18_DA19BBBBB01420.42BB01
1056i4o-m4_B_DT18_DA19BBBBB00230.49BB00
1066i4o-m5_B_DT18_DA19BBBBB00170.42BB00
1076i4o-m6_B_DT18_DA19BBBBB01640.27BB01
1086i4o-m7_B_DT18_DA19B-ABA05560.33BA05
1096i4o-m8_B_DT18_DA19BBBBB01910.21BB01
1106i4o-m9_B_DT18_DA19BBBBB01140.39BB01
1116i4o-m10_B_DA21_DT22miBBB12850.15BB12
1126i4o-m1_B_DA21_DT22B-ABA05820.16BA05
1136i4o-m2_B_DA21_DT22B-ABA05820.18BA05
1146i4o-m3_B_DA21_DT22B-ABA05880.16BA05
1156i4o-m4_B_DA21_DT22B-ABA05830.17BA05
1166i4o-m5_B_DA21_DT22B-ABA05870.18BA05
1176i4o-m6_B_DA21_DT22miBBB12840.19BB12
1186i4o-m7_B_DA21_DT22miBBB12860.15BB12
1196i4o-m8_B_DA21_DT22miBBB12860.20BB12
1206i4o-m9_B_DA21_DT22miBBB12770.23BB12
1216i4o-m10_B_DT22_DC23NANNANT00.40BB16
1226i4o-m1_B_DT22_DC23AAAAA02650.45AA02
1236i4o-m2_B_DT22_DC23AAAAA02540.49AA02
1246i4o-m3_B_DT22_DC23AAAAA02580.51AA02
1256i4o-m4_B_DT22_DC23AAAAA02560.45AA02
1266i4o-m5_B_DT22_DC23AAAAA02650.46AA02
1276i4o-m6_B_DT22_DC23NANNANT00.38BB16
1286i4o-m7_B_DT22_DC23NANNANT00.35BB16
1296i4o-m8_B_DT22_DC23NANNANT00.38BB16
1306i4o-m9_B_DT22_DC23NANNANT00.69BB01
1316i4o-m10_B_DC23_DG24AAAAA02550.54AA02
1326i4o-m1_B_DC23_DG24A-BAB01460.53AB01
1336i4o-m2_B_DC23_DG24A-BAB01460.52AB01
1346i4o-m3_B_DC23_DG24A-BAB01230.58AB01
1356i4o-m4_B_DC23_DG24A-BAB01540.46AB01
1366i4o-m5_B_DC23_DG24A-BAB01590.49AB01
1376i4o-m6_B_DC23_DG24NANNANT00.68AA01
1386i4o-m7_B_DC23_DG24NANNANT00.70AA01
1396i4o-m8_B_DC23_DG24AAAAA02670.49AA02
1406i4o-m9_B_DC23_DG24NANNANT00.73BA10

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.

© Jiří Černý & Bohdan Schneider

Definition of torsion angles
step:
Table of conformers

δεζα1β1γ1δ1χχ1NCCNNNCC
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

Drag the plot for panning, scroll to zoom, click a point to show superposition in JSmol.

Download

Results (as csv)
Restraints (default edits file)
Best NtC fitted to input structure.

Definition of the conformers as torsion averages (csv) and their esd values (csv) or as their Cartesian coordinates of the 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).

Show



Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N