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

©Jiří Černý & Bohdan Schneider

Structural basis for the transition from initiation to elongation transcription in T7 RNA polymerase

Results of the assignment of 44 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
011msw_T_DG112_DT111NANNANT01.01BB10
021msw_T_DT113_DG112NANNANT01.60OP28
031msw_T_DG114_DT113BBBBB00460.39BB00
041msw_T_DC115_DG114BBBBB00640.26BB00
051msw_T_DC116_DC115BBBBB00530.36BB00
061msw_T_DG117_DC116BBwBB02700.27BB02
071msw_T_DC118_DG117BBBBB00360.38BB00
081msw_T_DT119_DC118BBBBB00390.30BB00
091msw_T_DT120_DT119NANNANT00.93BB04
101msw_T_DA121_DT120NANNANT00.84OP21
111msw_T_DC122_DA121miBBB13580.33BB13
121msw_T_DG123_DC122BBwBB02650.21BB02
131msw_T_DC124_DG123B12BB04510.31BB04
141msw_T_DG125_DC124BBBBB00390.44BB00
151msw_T_DT126_DG125NANNANT00.46BB02
161msw_T_DG127_DT126BBBBB00200.56BB00
171msw_T_DC128_DG127NANNANT01.23BB16
181msw_T_DC129_DC128NANNANT00.66BB11
191msw_T_DG130_DC129NANNANT00.38BB16
201msw_N_DT14_DT15NANNANT01.25OP31
211msw_N_DT15_DT16NANNANT01.84OP21
221msw_N_DT16_DA17miBBB13730.44BB13
231msw_N_DA17_DC18NANNANT01.85OP16
241msw_N_DC18_DG19BBwBB16310.53BB16
251msw_N_DG19_DT20NANNANT00.42OP20
261msw_N_DT20_DT21NANNANT00.62OP22
271msw_N_DT21_DG22miBBB13760.31BB13
281msw_N_DG22_DC23BBBBB00530.34BB00
291msw_N_DC23_DG24BBwBB02690.23BB02
301msw_N_DG24_DC25BBBBB00620.33BB00
311msw_N_DC25_DA26BBwBB02600.22BB02
321msw_N_DA26_DC27miBBB13830.31BB13
331msw_N_DC27_DG28NANNANT01.16BB12
341msw_N_DG28_DG29BBBBB00320.35BB00
351msw_N_DG29_DC30BBwBB11410.55BB11
361msw_R_G2_A1AAAAA00700.15AA00
371msw_R_C3_G2AAAAA00630.23AA00
381msw_R_G4_C3AAAAA00890.18AA00
391msw_R_G5_G4AAAAA08750.24AA08
401msw_R_C6_G5AAAAA00760.12AA00
411msw_R_A7_C6AAAAA00740.23AA00
421msw_R_C8_A7AAwAA05200.55AA05
431msw_R_A9_C8NANNANT00.80IC03
441msw_R_G10_A9NANNANT00.72IC07

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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