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

©Jiří Černý & Bohdan Schneider

SOLUTION STRUCTURE OF THE LEAD-DEPENDENT RIBOZYME, NMR, MINIMIZED AVERAGE STRUCTURE

Results of the assignment of 29 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
012ldz_A_G1_C2AAuAA12360.35AA12
022ldz_A_C2_G3AAwAA06620.23AA06
032ldz_A_G3_A4AAAAA00340.28AA00
042ldz_A_A4_C5AAwAA01310.28AA01
052ldz_A_C5_C6AAwAA06460.57AA06
062ldz_A_C6_G7SYNAB2S540.28AB2S
072ldz_A_G7_A8NANNANT01.47OPS1
082ldz_A_A8_G9NANNANT01.14AA08
092ldz_A_G9_C10NANNANT00.62OP22
102ldz_A_C10_C11NANNANT00.64AA10
112ldz_A_C11_A12AAAAA00590.26AA00
122ldz_A_A12_G13AAwAA01250.35AA01
132ldz_A_G13_C14AAAAA00640.26AA00
142ldz_A_C14_G15AAwAA01170.60AA01
152ldz_A_G15_A16NANNANT00.24OP04
162ldz_A_A16_A17AAAAA0090.46AA00
172ldz_A_A17_A18NANNANT00.65AA08
182ldz_A_A18_G19AAwAA05640.20AA05
192ldz_A_G19_U20AAAAA00430.47AA00
202ldz_A_U20_U21AAwAA01200.57AA01
212ldz_A_U21_G22AAAAA08550.15AA08
222ldz_A_G22_G23AAwAA01120.22AA01
232ldz_A_G23_G24AAAAA08150.60AA08
242ldz_A_G24_A25AAwAA11210.48AA11
252ldz_A_A25_G26AAAAA04410.46AA04
262ldz_A_G26_U27AAwAA01200.35AA01
272ldz_A_U27_C28AAAAA04230.59AA04
282ldz_A_C28_G29NANNANT00.37AA06
292ldz_A_G29_C30AAwAA01600.24AA01

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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