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

©Jiří Černý & Bohdan Schneider

3'-deoxy modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

Results of the assignment of 16 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
017lnf_A_A5_C6AAAAA00890.18AA00
027lnf_A_C6_U7AAAAA00850.18AA00
037lnf_A_U7_U8AAAAA00900.11AA00
047lnf_A_U8_A9AAAAA00770.21AA00
057lnf_A_A9_A10AAAAA00900.12AA00
067lnf_A_A10_G11AAAAA00940.10AA00
077lnf_A_G11_U12AAAAA00750.13AA00
087lnf_A_U12_C13AAAAA00890.15AA00
097lnf_B_A5_C6AAAAA00890.18AA00
107lnf_B_C6_U7AAAAA00820.20AA00
117lnf_B_U7_U8AAAAA00860.12AA00
127lnf_B_U8_A9AAAAA00700.24AA00
137lnf_B_A9_A10AAAAA00840.12AA00
147lnf_B_A10_G11AAAAA00900.10AA00
157lnf_B_G11_U12AAAAA00830.13AA00
167lnf_B_U12_C13AAAAA00820.16AA00

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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