Home or other PDB ID
 
 
 
 
 
 
 
 
 
Selection mode
 
 
 
 
 
 
Conformers: ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Product of 14mer primer with activated asymmetric GA dimer diastereomer 1

Results of the assignment of 20 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

Your browser does not support the HTML5 canvas tag.
Your browser does not support the HTML5 canvas tag.
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
step numberStep nameCANANtCconfalrmsd
017u8b_A_LCG4_A5AAAAA00570.17 AA00
027u8b_A_A5_C6AAAAA00810.17 AA00
037u8b_A_C6_U7AAAAA00960.14 AA00
047u8b_A_U7_U8AAAAA00850.20 AA00
057u8b_A_U8_A9AAAAA00920.13 AA00
067u8b_A_A9_A10AAAAA00950.09 AA00
077u8b_A_A10_G11AAAAA00930.09 AA00
087u8b_A_G11_U12AAAAA00880.10 AA00
097u8b_A_U12_C13AAAAA00760.16 AA00
107u8b_A_C13_G14AAAAA00850.19 AA00
117u8b_B_LCG4_A5AAAAA00750.18 AA00
127u8b_B_A5_C6AAAAA00670.15 AA00
137u8b_B_C6_U7AAAAA00930.10 AA00
147u8b_B_U7_U8AAAAA00780.17 AA00
157u8b_B_U8_A9AAAAA00840.19 AA00
167u8b_B_A9_A10AAAAA00940.12 AA00
177u8b_B_A10_G11AAwAA10660.24 AA10
187u8b_B_G11_U12AAAAA00860.12 AA00
197u8b_B_U12_C13AAAAA00860.14 AA00
207u8b_B_C13_G14AAAAA00510.21 AA00

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.
Best NtC fitted to input structure.

Restraints

Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]

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).

Browse conformers

Return up to random steps in PDB structures ( include large structures )

Show




Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N