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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
Crystal Structure of the Human Retinoid X Receptor DNA-Binding Domain Bound to the Human Gde1SpA Response Element

Results of the assignment of 64 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
014cn3_E_DC1_DT2A-BAB05430.30AB05
024cn3_E_DT2_DA3NANNANT00.89OP15
034cn3_E_DA3_DG4AAAAA00630.29AA00
044cn3_E_DG4_DT5A-BAB04360.35AB04
054cn3_E_DT5_DT6A-BAB03750.37AB03
064cn3_E_DT6_DC7BBBBB00610.49BB00
074cn3_E_DC7_DA8BB2BB07790.21BB07
084cn3_E_DA8_DA9BBBBB00490.37BB00
094cn3_E_DA9_DA10B-ABA13750.19BA13
104cn3_E_DA10_DG11AAAAA00710.26AA00
114cn3_E_DG11_DT12AAAAA00750.16AA00
124cn3_E_DT12_DT13A-BAB01360.28AB01
134cn3_E_DT13_DC14BBBBB00590.49BB00
144cn3_E_DC14_DA15BB2BB07800.18BB07
154cn3_E_DA15_DC16BBBBB01240.36BB01
164cn3_E_DC16_DA17NANNANT01.57OP09
174cn3_F_DT1_DG2BB1BB1680.65BB16
184cn3_F_DG2_DT3B-ABA05710.26BA05
194cn3_F_DT3_DG4A-BAB01140.46AB01
204cn3_F_DG4_DA5BB2BB07750.23BB07
214cn3_F_DA5_DA6BBBBB00770.25BB00
224cn3_F_DA6_DC7B-ABA13960.18BA13
234cn3_F_DC7_DT8A-BAB05830.20AB05
244cn3_F_DT8_DT9BB1BB03670.26BB03
254cn3_F_DT9_DT10BBBBB01830.26BB01
264cn3_F_DT10_DG11BBBBB00220.40BB00
274cn3_F_DG11_DA12BB2BB07720.28BB07
284cn3_F_DA12_DA13BBBBB00790.27BB00
294cn3_F_DA13_DC14NANNANT00.20BA10
304cn3_F_DC14_DT15NANNANT00.73BB16
314cn3_F_DT15_DA16NANNANT00.35AB2S
324cn3_F_DA16_DG17SYNBBS1400.29BBS1
334cn3_G_DC1_DT2A-BAB05590.29AB05
344cn3_G_DT2_DA3NANNANT01.28OP16
354cn3_G_DA3_DG4AAAAA00470.28AA00
364cn3_G_DG4_DT5A-BAB04310.35AB04
374cn3_G_DT5_DT6BBBBB00180.30BB00
384cn3_G_DT6_DC7BBBBB00640.46BB00
394cn3_G_DC7_DA8BB2BB07830.24BB07
404cn3_G_DA8_DA9BBBBB00680.36BB00
414cn3_G_DA9_DA10B-ABA13810.16BA13
424cn3_G_DA10_DG11AAAAA00690.24AA00
434cn3_G_DG11_DT12A-BAB04310.40AB04
444cn3_G_DT12_DT13BBBBB00240.27BB00
454cn3_G_DT13_DC14BBBBB00650.45BB00
464cn3_G_DC14_DA15BB2BB07770.28BB07
474cn3_G_DA15_DC16B-ABA05680.28BA05
484cn3_G_DC16_DA17NANNANT00.71OP14
494cn3_H_DT1_DG2A-BAB03110.52AB03
504cn3_H_DG2_DT3B-ABA08770.46BA08
514cn3_H_DT3_DG4BB1BB16400.38BB16
524cn3_H_DG4_DA5BB2BB07890.17BB07
534cn3_H_DA5_DA6BBBBB00730.25BB00
544cn3_H_DA6_DC7B-ABA10860.21BA10
554cn3_H_DC7_DT8A-BAB05780.19AB05
564cn3_H_DT8_DT9BB1BB03880.28BB03
574cn3_H_DT9_DT10BBBBB01570.28BB01
584cn3_H_DT10_DG11BBBBB00310.42BB00
594cn3_H_DG11_DA12BB2BB07810.31BB07
604cn3_H_DA12_DA13BBBBB00660.25BB00
614cn3_H_DA13_DC14B-ABA05660.15BA05
624cn3_H_DC14_DT15NANNANT00.49AB01
634cn3_H_DT15_DA16NANNANT00.45AB1S
644cn3_H_DA16_DG17SYNBBS1560.21BBS1

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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