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Conformers: ABBIImiBZICOPNSYNN
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26-mer stem-loop RNA

Results of the assignment of 50 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 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
016ymc_A_U1_C2AAAAA00730.22 AA00
026ymc_A_C2_U3AAAAA00840.15 AA00
036ymc_A_U3_C4AAAAA00650.14 AA00
046ymc_A_C4_U5AAAAA00870.17 AA00
056ymc_A_U5_G6AAwAA01830.23 AA01
066ymc_A_G6_G7AAAAA00480.29 AA00
076ymc_A_G7_U8AAAAA00880.16 AA00
086ymc_A_U8_U9AAAAA00870.13 AA00
096ymc_A_U9_A10AAAAA00850.10 AA00
106ymc_A_A10_G11AAAAA00860.12 AA00
116ymc_A_G11_G12AAAAA00820.21 AA00
126ymc_A_G12_A13NANNANT00.64 OP04
136ymc_A_A13_A14AAAAA08120.52 AA08
146ymc_A_A14_A15AAAAA02450.22 AA02
156ymc_A_A15_C16NANNANT00.86 AA08
166ymc_A_C16_U17AAAAA00860.14 AA00
176ymc_A_U17_A18AAAAA00790.12 AA00
186ymc_A_A18_A19AAAAA08800.24 AA08
196ymc_A_A19_C20AAAAA00640.17 AA00
206ymc_A_C20_U21AAAAA00530.26 AA00
216ymc_A_U21_A22AAuAA12350.39 AA12
226ymc_A_A22_G23AAAAA00690.16 AA00
236ymc_A_G23_G24AAAAA00670.24 AA00
246ymc_A_G24_G25AAAAA00700.31 AA00
256ymc_A_G25_A26AAAAA00720.25 AA00
266ymc_B_U1_C2AAAAA00920.14 AA00
276ymc_B_C2_U3NANNANT00.18 AA03
286ymc_B_U3_C4AAAAA03580.19 AA03
296ymc_B_C4_U5AAAAA08770.19 AA08
306ymc_B_U5_G6AAAAA00830.17 AA00
316ymc_B_G6_G7AAAAA00870.23 AA00
326ymc_B_G7_U8AAAAA00960.10 AA00
336ymc_B_U8_U9AAAAA00840.13 AA00
346ymc_B_U9_A10AAAAA00850.13 AA00
356ymc_B_A10_G11AAAAA00620.14 AA00
366ymc_B_G11_G12AAAAA00770.18 AA00
376ymc_B_G12_A13OPNOP03600.17 OP03
386ymc_B_A13_A14AAAAA08350.36 AA08
396ymc_B_A14_A15AAAAA00360.33 AA00
406ymc_B_A15_C16NANNANT00.88 AA08
416ymc_B_C16_U17AAAAA00790.17 AA00
426ymc_B_U17_A18AAAAA00910.11 AA00
436ymc_B_A18_A19AAAAA00850.14 AA00
446ymc_B_A19_C20AAAAA08780.20 AA08
456ymc_B_C20_U21AAAAA00740.23 AA00
466ymc_B_U21_A22AAAAA00710.23 AA00
476ymc_B_A22_G23AAAAA04900.14 AA04
486ymc_B_G23_G24AAAAA00550.24 AA00
496ymc_B_G24_G25AAAAA00720.27 AA00
506ymc_B_G25_A26AAAAA00800.20 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).

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