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

©Jiří Černý & Bohdan Schneider

Structural insights into IL-1 alpha recognition by a naphthyl-modified aptamer that mimics IL-1RI Domain III

Results of the assignment of 21 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
015uc6_B_DC1_DG2ZZZZZ1S750.17ZZ1S
025uc6_B_DG2_85Y3NANNANT00.81IC04
035uc6_B_85Y3_DG4BBBBB00170.56BB00
045uc6_B_DG4_DA5NANNANT01.73OP19
055uc6_B_DA5_DG6NANNANT00.50ZZ2S
065uc6_B_DG6_85Y7NANNANT01.78BB1S
075uc6_B_85Y7_85Y8NANNANT00.76OPS1
085uc6_B_85Y8_DA9ZZZZZ1S200.27ZZ1S
095uc6_B_DA9_85Y10NANNANT00.68BBS1
105uc6_B_85Y10_DG11NANNANT00.80OP26
115uc6_B_DG11_DG12NANNANT00.62OP12
125uc6_B_DG12_DG13A-BAB01660.29AB01
135uc6_B_DG13_85Y14NANNANT00.70BB20
145uc6_B_85Y14_85Y15NANNANT00.95AA12
155uc6_B_85Y15_DA16ZZZZZ2S540.28ZZ2S
165uc6_B_DA16_DG17SYNBBS1790.28BBS1
175uc6_B_DG17_DA18OPNOP15570.46OP15
185uc6_B_DA18_DG19NANNANT01.87AB02
195uc6_B_DG19_85Y20NANNANT00.58IC07
205uc6_B_85Y20_DC21NANNANT01.23BB15
215uc6_B_DC21_DG22NANNANT00.21ZZ1S

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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