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. 2018 Mar 9:18:348-359.
doi: 10.1016/j.dib.2018.02.081. eCollection 2018 Jun.

Data set on G4 DNA interactions with human proteins

M Vlasenok  1 , O Levchenko  1 , D Basmanov  1 , D Klinov  1 , A Varizhuk  1 , G Pozmogova  1
Affiliations

Data set on G4 DNA interactions with human proteins

M Vlasenok et al. Data Brief. .

Abstract

Guanine-rich DNA/RNA fragments can fold into G-quadruplexes (G4s) - non-canonical four-strand secondary structures. The article contains data on quadruplex interaction with human proteins. Binding of three topologically different G4 structures to more than 9000 human proteins was analyzed. Physicochemical methods were used to verify the results.The dataset was generated to identify the protein targets for DNA quadruplex structures for the purpose of better understanding the role of the structures in gene expression regulation. Presented data include functional interpretation of obtained gene lists, visualized with Cytoscape.

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Figures

Fig. 1
Fig. 1
Characterization of biotinylated G4s. (A) СD spectra (per mole of nucleotide) and schematic representations of previously characterized initial (non-biotinylated) G4 structures. (B) CD spectra of the 3’-biotinylated G4s. (C) Rotational relaxation time (RRT) of EtBr in complex with G4-3. Conditions: 20 mM Tris–HCl buffer (pH 7.5), 100 mM KCl. Points on the graph correspond to the average values of three measurements.
Fig. 2
Fig. 2
Workflow of profiling G4-protein interactions using human protein microarrays.
Fig. 3
Fig. 3
Three Venn diagrams for protein interactors of G4 ONs profiled at different concentrations.
Fig. 4
Fig. 4
Verification of the profiling data for selected proteins. (A) Data on BRD3 interactions with G4 and non-G4 (hairpin and (TG)7) ONs: electrophoretic mobility shift assay. (B) Data on SNFT interactions with G4 and non-G4 (N15) ONs: photonic crystal surface wave assay. The sensorgrams illustrate changes in the effective adlayer thickness (delta H) upon ON sorption on/desorption from the SNFT-coated photonic crystal (PC) slide surface.
Figure S1
Figure S1
High Resolution Array Image. Positive control.
Figure S2
Figure S2
High Resolution Array Image. Negative control.
Figure S3
Figure S3
High Resolution Array Image. Experimental assay with G4-1, profiled at 2.5 μM.
Figure S4
Figure S4
High Resolution Array Image. Experimental assay with G4-1, profiled at 25 μM.
Figure S5
Figure S5
High Resolution Array Image. Experimental assay with G4-2, profiled at 2.5 μM.
Figure S6
Figure S6
High Resolution Array Image. Experimental assay with G4-2, profiled at 25 μM.
Figure S7
Figure S7
High Resolution Array Image. Experimental assay with G4-3, profiled at 2.5 μM.
Figure S8
Figure S8
High Resolution Array Image. Experimental assay with G4-3, profiled at 25 μM.
See this image and copyright information in PMC

References

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