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

©Jiří Černý & Bohdan Schneider

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

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.

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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
017kup_A_LCG4_A9AAAAA00760.18AA00
027kup_A_A9_C10AAAAA00800.20AA00
037kup_A_C10_U11AAAAA00880.17AA00
047kup_A_U11_U12AAAAA00930.14AA00
057kup_A_U12_A13AAAAA00830.11AA00
067kup_A_A13_A14AAAAA08870.22AA08
077kup_A_A14_G15AAAAA00680.12AA00
087kup_A_G15_U16AAAAA00600.16AA00
097kup_A_U16_C17AAAAA00870.20AA00
107kup_A_C17_OMG19AAAAA00930.18AA00
117kup_B_LCG4_A9AAAAA00760.18AA00
127kup_B_A9_C10AAAAA00800.20AA00
137kup_B_C10_U11AAAAA00880.17AA00
147kup_B_U11_U12AAAAA00940.13AA00
157kup_B_U12_A13AAAAA00890.10AA00
167kup_B_A13_A14AAAAA08880.20AA08
177kup_B_A14_G15AAAAA00750.11AA00
187kup_B_G15_U16AAAAA00600.17AA00
197kup_B_U16_C17AAAAA00870.21AA00
207kup_B_C17_OMG19AAAAA00890.18AA00

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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