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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
Crystal Structure of VDR DNA-binding Domain Bound to a Canonical Direct Repeat with Three Base Pair Spacer (DR3) Response Element

Results of the assignment of 34 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
011kb4_C_DC401_DA402BBBBB00540.34BB00
021kb4_C_DA402_DC403BBBBB00840.26BB00
031kb4_C_DC403_DA404B-ABA13370.40BA13
041kb4_C_DA404_DG405NANNANT00.61BB16
051kb4_C_DG405_DG406BBBBB00600.22BB00
061kb4_C_DG406_DT407miBBB15240.21BB15
071kb4_C_DT407_DC408BBBBB00380.32BB00
081kb4_C_DC408_DA409BB2BB07660.21BB07
091kb4_C_DA409_DC410BBBBB00580.26BB00
101kb4_C_DC410_DG411B12BB04830.21BB04
111kb4_C_DG411_DA412BBBBB00840.22BB00
121kb4_C_DA412_DA413B-ABA13500.36BA13
131kb4_C_DA413_DG414A-BAB01140.35AB01
141kb4_C_DG414_DG415BBBBB00560.18BB00
151kb4_C_DG415_DT416BBBBB00680.17BB00
161kb4_C_DT416_DC417BBBBB00460.34BB00
171kb4_C_DC417_DA418B12BB04340.39BB04
181kb4_D_DT419_DG420BBBBB00330.41BB00
191kb4_D_DG420_DA421BB2BB07970.17BB07
201kb4_D_DA421_DC422BBBBB00570.35BB00
211kb4_D_DC422_DC423BBBBB00790.24BB00
221kb4_D_DC423_DT424B12BB04910.24BB04
231kb4_D_DT424_DT425BB1BB02930.11BB02
241kb4_D_DT425_DC426BBBBB00740.34BB00
251kb4_D_DC426_DG427B12BB04810.14BB04
261kb4_D_DG427_DT428BB1BB02690.19BB02
271kb4_D_DT428_DG429BBBBB00690.38BB00
281kb4_D_DG429_DA430BB2BB07840.23BB07
291kb4_D_DA430_DC431BBBBB00680.32BB00
301kb4_D_DC431_DC432BBBBB00760.23BB00
311kb4_D_DC432_DT433B12BB04820.24BB04
321kb4_D_DT433_DG434BBBBB00880.20BB00
331kb4_D_DG434_DT435BBBBB00840.28BB00
341kb4_D_DT435_DG436BBBBB00640.24BB00

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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