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

©Jiří Černý & Bohdan Schneider

Crystal Structure of the Homo sapiens Cytoplasmic Ribosomal Decoding Site complexed with Apramycin

Results of the assignment of 42 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
012g5k_A_U2_G3NANNANT01.24OP16
022g5k_A_G3_C4AAAAA08390.27AA08
032g5k_A_C4_G5AAAAA00890.14AA00
042g5k_A_G5_U6AAAAA00800.36AA00
052g5k_A_U6_C7AAwAA11800.22AA11
062g5k_A_C7_G8AAAAA00560.36AA00
072g5k_A_G8_C9AAAAA00960.14AA00
082g5k_A_C9_U10AAAAA00730.24AA00
092g5k_A_U10_C11AAAAA00930.18AA00
102g5k_A_C11_C12AAAAA00780.23AA00
112g5k_A_C12_G13AAAAA00780.10AA00
122g5k_A_G13_G14AAAAA00830.23AA00
132g5k_A_G14_A15AAAAA00850.24AA00
142g5k_A_A15_A16NANNANT00.68OP04
152g5k_A_A16_A17NANNANT01.50OP16
162g5k_A_A17_A18NANNANT00.35OP06
172g5k_A_A18_G19NANNANT01.15OP12
182g5k_A_G19_U20NANNANT00.64AA12
192g5k_A_U20_C21AAAAA00880.23AA00
202g5k_A_C21_G22AAAAA00830.21AA00
212g5k_A_G22_C23AAAAA00870.23AA00
222g5k_B_U25_G26NANNANT01.24OP16
232g5k_B_G26_C27AAAAA08390.27AA08
242g5k_B_C27_G28AAAAA00890.14AA00
252g5k_B_G28_U29AAAAA00800.36AA00
262g5k_B_U29_C30AAwAA11800.22AA11
272g5k_B_C30_G31AAAAA00550.36AA00
282g5k_B_G31_C32AAAAA00960.14AA00
292g5k_B_C32_U33AAAAA00730.24AA00
302g5k_B_U33_C34AAAAA00930.18AA00
312g5k_B_C34_C35AAAAA00770.23AA00
322g5k_B_C35_G36AAAAA00790.10AA00
332g5k_B_G36_G37AAAAA00830.23AA00
342g5k_B_G37_A38AAAAA00860.24AA00
352g5k_B_A38_A39NANNANT00.68OP04
362g5k_B_A39_A40NANNANT01.50OP16
372g5k_B_A40_A41NANNANT00.35OP06
382g5k_B_A41_G42NANNANT01.15OP12
392g5k_B_G42_U43NANNANT00.64AA12
402g5k_B_U43_C44AAAAA00880.23AA00
412g5k_B_C44_G45AAAAA00830.21AA00
422g5k_B_G45_C46AAAAA00870.23AA00

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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