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

©Jiří Černý & Bohdan Schneider

N4 mini-vRNAP transcription initiation complex, 2 min after soaking GTP, ATP and Mn

Results of the assignment of 38 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
014ff2_C_DT3_DT4NANNANT00.87OP17
024ff2_C_DT4_DC5AAAAA00740.20AA00
034ff2_C_DC5_DA6AAAAA00660.16AA00
044ff2_C_DA6_DA7NANNANT00.67OP05
054ff2_C_DA7_DA8B12BB04830.25BB04
064ff2_C_DA8_DA9NANNANT00.70BA05
074ff2_C_DA9_DG10NANNANT00.94OP30
084ff2_C_DG10_DA11BBBBB00410.26BB00
094ff2_C_DA11_DA12BBBBB00680.31BB00
104ff2_C_DA12_DG13B12BB04330.43BB04
114ff2_C_DG13_DC14BBBBB00730.29BB00
124ff2_C_DC14_DG15NANNANT00.83BA08
134ff2_C_DG15_DG16NANNANT00.52BB00
144ff2_C_DG16_DA17NANNANT00.78OP19
154ff2_C_DA17_DG18BBBBB00320.45BB00
164ff2_C_DG18_DC19BB2BB07320.36BB07
174ff2_C_DC19_DT20B-ABA05770.28BA05
184ff2_C_DT20_DT21A-BAB03890.27AB03
194ff2_C_DT21_DC22B-ABA01120.16BA01
204ff2_D_DT3_DT4NANNANT00.45OP29
214ff2_D_DT4_DC5AAAAA00600.33AA00
224ff2_D_DC5_DA6AAAAA00490.19AA00
234ff2_D_DA6_DA7NANNANT00.70OP05
244ff2_D_DA7_DA8B12BB04900.27BB04
254ff2_D_DA8_DA9NANNANT00.62BB00
264ff2_D_DA9_DG10NANNANT00.99OP30
274ff2_D_DG10_DA11BBBBB00400.26BB00
284ff2_D_DA11_DA12BBBBB00810.25BB00
294ff2_D_DA12_DG13B12BB04580.38BB04
304ff2_D_DG13_DC14BBBBB00760.26BB00
314ff2_D_DC14_DG15NANNANT00.88BA08
324ff2_D_DG15_DG16NANNANT00.51BB00
334ff2_D_DG16_DA17NANNANT00.78OP19
344ff2_D_DA17_DG18BBBBB00420.39BB00
354ff2_D_DG18_DC19BB2BB07410.35BB07
364ff2_D_DC19_DT20B-ABA05640.21BA05
374ff2_D_DT20_DT21A-BAB01400.20AB01
384ff2_D_DT21_DC22BBBBB01180.29BB01

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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