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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
Crystal structure of R.NgoAVII restriction endonuclease B3 domain with cognate DNA

Results of the assignment of 56 detected steps in 1 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
014rd5_C_DC2_DC3NANNANT00.56AA10
024rd5_C_DC3_DT4NANNANT00.55AB03
034rd5_C_DT4_DA5BB1BB16340.48BB16
044rd5_C_DA5_DA6BBBBB00330.40BB00
054rd5_C_DA6_DG7BB2BB07440.23BB07
064rd5_C_DG7_DC8BBBBB00740.40BB00
074rd5_C_DC8_DG9BB2BB07690.29BB07
084rd5_C_DG9_DG10BBBBB00820.24BB00
094rd5_C_DG10_DC11BB2BB07760.23BB07
104rd5_C_DC11_DA12BBBBB00690.42BB00
114rd5_C_DA12_DA13BB2BB07860.22BB07
124rd5_C_DA13_DT14B-ABA05720.14BA05
134rd5_C_DT14_DC15A-BAB03790.20AB03
144rd5_C_DC15_DC16NANNANT00.50BA09
154rd5_D_DG17_DG18AAAAA00630.21AA00
164rd5_D_DG18_DG19A-BAB05450.21AB05
174rd5_D_DG19_DA20NANNANT00.35BB10
184rd5_D_DA20_DT21BBBBB01490.20BB01
194rd5_D_DT21_DT22BBBBB00490.24BB00
204rd5_D_DT22_DG23NANNANT00.43BB08
214rd5_D_DG23_DC24B-ABA05520.41BA05
224rd5_D_DC24_DC25BBBBB01340.34BB01
234rd5_D_DC25_DG26BBBBB00710.28BB00
244rd5_D_DG26_DC27BB2BB07690.21BB07
254rd5_D_DC27_DT28BBBBB00500.35BB00
264rd5_D_DT28_DT29BB2BB07310.52BB07
274rd5_D_DT29_DA30BB2BB07770.21BB07
284rd5_D_DA30_DG31miBBB10460.23BB10
294rd5_E_DC2_DC3BB1BB17380.41BB17
304rd5_E_DC3_DT4BBBBB00760.20BB00
314rd5_E_DT4_DA5miBBB10450.26BB10
324rd5_E_DA5_DA6BBBBB00680.29BB00
334rd5_E_DA6_DG7BB2BB07530.23BB07
344rd5_E_DG7_DC8BBBBB00400.43BB00
354rd5_E_DC8_DG9BB2BB07700.33BB07
364rd5_E_DG9_DG10BBBBB00830.29BB00
374rd5_E_DG10_DC11BB2BB07620.24BB07
384rd5_E_DC11_DA12BBBBB00650.48BB00
394rd5_E_DA12_DA13BB2BB07240.30BB07
404rd5_E_DA13_DT14B-ABA10740.22BA10
414rd5_E_DT14_DC15NANNANT00.71AA10
424rd5_E_DC15_DC16BB1BB16590.33BB16
434rd5_F_DG17_DG18NANNANT00.48BB13
444rd5_F_DG18_DG19NANNANT00.49BB10
454rd5_F_DG19_DA20miBBB14280.48BB14
464rd5_F_DA20_DT21BBBBB00380.33BB00
474rd5_F_DT21_DT22NANNANT00.46BB05
484rd5_F_DT22_DG23NANNANT00.38BB08
494rd5_F_DG23_DC24B-ABA05300.45BA05
504rd5_F_DC24_DC25A-BAB03780.35AB03
514rd5_F_DC25_DG26BBBBB00850.23BB00
524rd5_F_DG26_DC27BB2BB07800.24BB07
534rd5_F_DC27_DT28BB1BB02130.38BB02
544rd5_F_DT28_DT29BBBBB00100.48BB00
554rd5_F_DT29_DA30B12BB04470.31BB04
564rd5_F_DA30_DG31BB1BB02540.43BB02

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).

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