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

©Jiří Černý & Bohdan Schneider

Structure of HIV-1 RT complexed with RNA/DNA hybrid in the RNA hydrolysis mode

Results of the assignment of 43 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
016bsh_D_DG1_DT2NANNANT00.89AB02
026bsh_D_DT2_DA3BBBBB00490.24BB00
036bsh_D_DA3_DT4B-ABA10810.30BA10
046bsh_D_DT4_DG5A-BAB02490.36AB02
056bsh_D_DG5_DC6A-BAB03430.39AB03
066bsh_D_DC6_DC7NANNANT00.46BB03
076bsh_D_DC7_DA8NANNANT00.43BA08
086bsh_D_DA8_DC9AAAAA00850.15AA00
096bsh_D_DC9_DT10AAAAA00870.21AA00
106bsh_D_DT10_DA11AAAAA00840.14AA00
116bsh_D_DA11_DG12NANNANT00.45AA10
126bsh_D_DG12_DT13AAAAA08570.22AA08
136bsh_D_DT13_DT14A-BAB01370.30AB01
146bsh_D_DT14_DA15NANNANT00.44BA10
156bsh_D_DA15_DT16AAAAA00920.14AA00
166bsh_D_DT16_DT17AAAAA00760.22AA00
176bsh_D_DT17_DG18AAAAA00830.16AA00
186bsh_D_DG18_DT19AAAAA03840.20AA03
196bsh_D_DT19_DG20AAAAA00670.25AA00
206bsh_D_DG20_DG21AAwAA01790.17AA01
216bsh_D_DG21_DC22AAAAA03860.19AA03
226bsh_D_DC22_DC23NANNANT00.49AA08
236bsh_R_G3_A4NANNANT01.31OPS1
246bsh_R_G6_G7NANNANT00.36AA06
256bsh_R_G7_C8AAAAA08240.30AA08
266bsh_R_C8_C9AAAAA00650.25AA00
276bsh_R_C9_A10AAAAA00620.22AA00
286bsh_R_A10_C11AAAAA08960.10AA08
296bsh_R_C11_A12AAAAA00830.14AA00
306bsh_R_A12_A13AAAAA00810.13AA00
316bsh_R_A13_U14AAAAA00900.12AA00
326bsh_R_U14_A15AAAAA08810.18AA08
336bsh_R_A15_A16AAAAA00830.17AA00
346bsh_R_A16_C17AAAAA08840.19AA08
356bsh_R_U18_A19AAAAA00840.15AA00
366bsh_R_A19_G20AAAAA00890.08AA00
376bsh_R_G20_U21AAAAA00940.14AA00
386bsh_R_U21_G22AAAAA00850.23AA00
396bsh_R_G22_G23AAAAA08780.38AA08
406bsh_R_G23_C24AAAAA08570.35AA08
416bsh_R_C24_A25AAAAA00810.21AA00
426bsh_R_A25_U26AAwAA06850.21AA06
436bsh_R_U26_A27NANNANT00.82BB2S

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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