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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.

©Jiří Černý & Bohdan Schneider

DNA binding domain of restriction endonuclease McrBC in complex with 5-formylcytosine DNA

Results of the assignment of 44 detected steps in 1 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 JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
016gce_D_DG.A2_DC.A3NANNANT00.35BB16
026gce_D_DG.B2_DC.B3BBwBB16110.61BB16
036gce_D_DC.A3_DT.A4BBBBB00800.16BB00
046gce_D_DC.B3_DT.B4B-ABA05610.25BA05
056gce_D_DT.A4_DA.A5B12BB04800.20BB04
066gce_D_DT.B4_DA.B5BBBBB00160.53BB00
076gce_D_DA.A5_5FC.A6NANNANT00.46OP17
086gce_D_DA.B5_5FC.B6NANNANT00.45OP17
096gce_D_5FC.A6_DC.A7NANNANT01.00OP13
106gce_D_5FC.B6_DC.B7NANNANT01.02OP13
116gce_D_DC.A7_DG.A8A-BAB01190.34AB01
126gce_D_DC.B7_DG.B8A-BAB01400.31AB01
136gce_D_DG.A8_DG.A9B-ABA01410.37BA01
146gce_D_DG.B8_DG.B9B-ABA01490.36BA01
156gce_D_DG.A9_DT.A10A-BAB01240.40AB01
166gce_D_DG.B9_DT.B10A-BAB01140.45AB01
176gce_D_DT.A10_DC.A11B-ABA10810.29BA10
186gce_D_DT.B10_DC.B11NANNANT00.40AA01
196gce_D_DC.A11_DT.A12A-BAB05670.25AB05
206gce_D_DC.B11_DT.B12A-BAB01480.29AB01
216gce_D_DT.A12_DC.A13B-ABA05370.21BA05
226gce_D_DT.B12_DC.B13BBBBB00860.20BB00
236gce_C_DG.A2_DA.A3BBBBB00610.34BB00
246gce_C_DG.B2_DA.B3NANNANT00.30BB16
256gce_C_DA.A3_DG.A4BBBBB00820.17BB00
266gce_C_DA.B3_DG.B4BBBBB00780.17BB00
276gce_C_DG.A4_DA.A5B12BB04700.23BB04
286gce_C_DG.B4_DA.B5B12BB04770.17BB04
296gce_C_DA.A5_DC.A6NANNANT00.43OP17
306gce_C_DA.B5_DC.B6NANNANT00.49OP17
316gce_C_DC.A6_DC.A7NANNANT01.03OP13
326gce_C_DC.B6_DC.B7NANNANT01.02OP13
336gce_C_DC.A7_DG.A8A-BAB01440.31AB01
346gce_C_DC.B7_DG.B8A-BAB01520.29AB01
356gce_C_DG.A8_DG.A9B-ABA01460.36BA01
366gce_C_DG.B8_DG.B9B-ABA01540.37BA01
376gce_C_DG.A9_DT.A10NANNANT00.55AB04
386gce_C_DG.B9_DT.B10A-BAB01150.44AB01
396gce_C_DT.A10_DA.A11NANNANT00.35BA10
406gce_C_DT.B10_DA.B11NANNANT00.39BA10
416gce_C_DA.A11_DG.A12A-BAB01570.23AB01
426gce_C_DA.B11_DG.B12A-BAB01460.27AB01
436gce_C_DG.A12_DC.A13BBBBB00630.34BB00
446gce_C_DG.B12_DC.B13B-ABA05200.24BA05

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.
Restraints file for Phenix (steps with RMSD <= 0.5Å)
Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Best NtC fitted to input structure.

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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