Home or other PDB ID
 
 
 
 
 
 
 
 
 
Selection mode
 
 
 
 
 
 
Conformers: ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
STRUCTURE OF PVUII ENDONUCLEASE WITH COGNATE DNA

Results of the assignment of 24 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

Your browser does not support the HTML5 canvas tag.
Your browser does not support the HTML5 canvas tag.
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
step numberStep nameCANANtCconfalrmsd
011pvi_C_DT2_DG3BBwBB1660.60 BB16
021pvi_C_DG3_DA4BBBBB00490.35 BB00
031pvi_C_DA4_DC5B-ABA13340.25 BA13
041pvi_C_DC5_DC6AAAAA00640.26 AA00
051pvi_C_DC6_DA7AAAAA04810.28 AA04
061pvi_C_DA7_DG8AAAAA00570.33 AA00
071pvi_C_DG8_DC9AAwAA01180.49 AA01
081pvi_C_DC9_DT10AAAAA08100.61 AA08
091pvi_C_DT10_DG11NANNANT00.41 AB04
101pvi_C_DG11_DG12NANNANT00.34 BA05
111pvi_C_DG12_DT13NANNANT00.99 AA05
121pvi_C_DT13_DC14NANNANT00.55 AB02
131pvi_D_DT2_DG3NANNANT00.62 AA07
141pvi_D_DG3_DA4BBBBB00440.30 BB00
151pvi_D_DA4_DC5B-ABA13810.24 BA13
161pvi_D_DC5_DC6AAAAA04610.35 AA04
171pvi_D_DC6_DA7AAAAA04770.36 AA04
181pvi_D_DA7_DG8NANNANT00.45 AA04
191pvi_D_DG8_DC9AAAAA04620.37 AA04
201pvi_D_DC9_DT10AAwAA01820.28 AA01
211pvi_D_DT10_DG11A-BAB05440.40 AB05
221pvi_D_DG11_DG12BBBBB00480.45 BB00
231pvi_D_DG12_DT13NANNANT00.48 BB10
241pvi_D_DT13_DC14NANNANT00.79 AA04

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.
Best NtC fitted to input structure.

Restraints

Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]

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).

Browse conformers

Return up to random steps in PDB structures ( include large structures )

Show




Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N