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

©Jiří Černý & Bohdan Schneider

GNRA tetraloop receptor motif composed of RNA and DNA

Results of the assignment of 34 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
017ei5_A_C1_A2AAwAA10560.28AA10
027ei5_A_A2_G3AAAAA08890.21AA08
037ei5_A_G3_C4AAAAA00900.14AA00
047ei5_A_C4_A5AAAAA00880.15AA00
057ei5_A_A5_G6AAAAA08860.23AA08
067ei5_A_G6_G7AAAAA00760.17AA00
077ei5_A_G7_C8AAAAA00450.20AA00
087ei5_A_C8_U9AAAAA00870.27AA00
097ei5_A_U9_A10NANNANT00.39AA01
107ei5_A_A10_A11NANNANT00.54OP26
117ei5_A_A11_G12AAAAA08670.38AA08
127ei5_A_G12_G13AAAAA08920.21AA08
137ei5_A_G13_C14AAAAA00790.13AA00
147ei5_A_C14_A15AAAAA00860.28AA00
157ei5_A_A15_U16AAAAA00840.19AA00
167ei5_A_U16_G17AAAAA08810.17AA08
177ei5_A_G17_A18OPNOP03780.20OP03
187ei5_A_A18_A19AAAAA00590.30AA00
197ei5_A_A19_A20AAAAA00290.28AA00
207ei5_A_A20_DG21AAAAA04400.69AA04
217ei5_A_DG21_DT22AAAAA00900.17AA00
227ei5_A_DT22_DG23AAAAA00870.14AA00
237ei5_A_DG23_DC24AAAAA00800.20AA00
247ei5_A_DC24_DT25AAAAA00870.19AA00
257ei5_A_DT25_DA26ICLIC01760.23IC01
267ei5_A_DA26_DT27NANNANT00.50OP25
277ei5_A_DT27_DG28NANNANT00.74OP11
287ei5_A_DG28_DC29AAAAA00770.23AA00
297ei5_A_DC29_DC30AAAAA00680.20AA00
307ei5_A_DC30_DT31AAwAA01210.32AA01
317ei5_A_DT31_DG32AAAAA00610.43AA00
327ei5_A_DG32_DC33AAAAA00560.36AA00
337ei5_A_DC33_DT34NANNANT00.48AA01
347ei5_A_DT34_DG35BBwBB16360.67BB16

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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