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

©Jiří Černý & Bohdan Schneider

Structures of HIV-1 RT and RNA-DNA Complex Reveal a Unique RT Conformation and Substrate Interface

Results of the assignment of 40 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
014b3q_D_DA3_DT4A-BAB01280.34AB01
024b3q_D_DT4_DG5BBBBB00800.20BB00
034b3q_D_DG5_DC6BBBBB01860.16BB01
044b3q_D_DC6_DC7NANNANT00.55AA01
054b3q_D_DC7_DT8AAAAA00910.23AA00
064b3q_D_DT8_DA9AAAAA04840.17AA04
074b3q_D_DA9_DT10AAAAA00600.20AA00
084b3q_D_DT10_DA11AAwAA01730.33AA01
094b3q_D_DA11_DG12AAAAA08760.25AA08
104b3q_D_DG12_DT13AAAAA00860.18AA00
114b3q_D_DT13_DT14NANNANT00.54AB04
124b3q_D_DT14_DA15NANNANT00.48BA05
134b3q_D_DA15_DT16B-ABA05160.20BA05
144b3q_D_DT16_DT17AAAAA00440.38AA00
154b3q_D_DT17_DG18AAAAA00850.22AA00
164b3q_D_DG18_DT19AAAAA00900.19AA00
174b3q_D_DT19_DG20AAAAA00900.20AA00
184b3q_D_DG20_DG21AAwAA10690.20AA10
194b3q_D_DG21_DC22AAAAA08850.18AA08
204b3q_D_DC22_DC23AAAAA00440.31AA00
214b3q_R_G6_G7AAAAA00820.16AA00
224b3q_R_G7_C8AAAAA00890.16AA00
234b3q_R_C8_C9AAAAA00710.28AA00
244b3q_R_C9_A10AAAAA00940.16AA00
254b3q_R_A10_C11AAAAA00810.17AA00
264b3q_R_C11_A12AAwAA10490.35AA10
274b3q_R_A12_A13AAAAA08590.36AA08
284b3q_R_A13_U14AAAAA04870.18AA04
294b3q_R_U14_A15AAAAA04770.29AA04
304b3q_R_A15_A16AAAAA04810.24AA04
314b3q_R_A16_C17AAAAA00710.18AA00
324b3q_R_C17_U18NANNANT00.47AA10
334b3q_R_U18_A19AAAAA04310.56AA04
344b3q_R_A19_U20AAAAA00920.15AA00
354b3q_R_U20_A21AAAAA00860.17AA00
364b3q_R_A21_G22AAAAA00810.13AA00
374b3q_R_G22_G23AAAAA00780.19AA00
384b3q_R_G23_C24AAAAA00790.17AA00
394b3q_R_C24_A25AAAAA00950.16AA00
404b3q_R_A25_U26AAAAA08840.17AA08

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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