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

©Jiří Černý & Bohdan Schneider

STEM LOOP IIA FROM U2 SNRNA OF SACCHAROMYCES CEREVISIAE, NMR, MINIMIZED AVERAGE STRUCTURE

Results of the assignment of 19 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
012u2a_A_G1_G2AAAAA00470.24AA00
022u2a_A_G2_U3AAAAA00650.15AA00
032u2a_A_U3_C4AAAAA00690.18AA00
042u2a_A_C4_A5AAAAA00620.29AA00
052u2a_A_A5_G6AAAAA00830.23AA00
062u2a_A_G6_U7AAuAA12200.46AA12
072u2a_A_U7_G8AAAAA08470.50AA08
082u2a_A_G8_U9NANNANT00.77AA10
092u2a_A_U9_A10OPNOP04100.44OP04
102u2a_A_A10_A11NANNANT00.45AA03
112u2a_A_A11_C12NANNANT00.54BA09
122u2a_A_C12_A13NANNANT00.83AA00
132u2a_A_A13_A14AAAAA08370.48AA08
142u2a_A_A14_C15AAAAA00440.27AA00
152u2a_A_C15_U16AAAAA00760.25AA00
162u2a_A_U16_G17AAAAA00660.27AA00
172u2a_A_G17_A18AAAAA00460.26AA00
182u2a_A_A18_C19AAAAA00560.20AA00
192u2a_A_C19_C20AAAAA00640.22AA00

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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