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

©Jiří Černý & Bohdan Schneider

DNA POLYMERASE BETA (POL B) (E.C.2.7.7.7) COMPLEXED WITH SEVEN BASE PAIRS OF DNA; SOAKED IN THE PRESENCE OF CACL2 (150 MILLIMOLAR)

Results of the assignment of 12 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
011zqd_T_DC1_DA2NANNANT00.58BB00
021zqd_T_DA2_DT3BBBBB00480.27BB00
031zqd_T_DT3_DT4NANNANT00.52AB03
041zqd_T_DT4_DA5NANNANT00.85BB16
051zqd_T_DA5_DG6BBBBB00540.29BB00
061zqd_T_DG6_DA7NANNANT00.39BB10
071zqd_P_DT1_DC2A-BAB03390.37AB03
081zqd_P_DC2_DT3A-BAB03300.47AB03
091zqd_P_DT3_DA4BBBBB00210.36BB00
101zqd_P_DA4_DA5B-ABA05100.32BA05
111zqd_P_DA5_DT6NANNANT00.44BB02
121zqd_P_DT6_DG7NANNANT00.64BB02

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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