Non-specific DNA binding

The pRb protein is a nuclear phosphoprotein of ca. 100 kDa. The domain structure of pRb is shown in Fig. 13.13 (review Riley et al., 1994 Weinberg, 1995). The pRb proteins possesses numerous Ser/Thr phosphorylation sites, binding sites for the transcription factor E2F, for the viral oncoproteins TAg, ElA and E7 (see Chapter 14) and a non-specific DNA binding site. Furthermore, an N-terminal sequence section has been identified in pRb protein that is required for oligomerization. 

Applying affinity coelectrophoresis to the study of non-specific, DNA binding peptides... 

Segall, A. M., Goodman, S. D. Nash, H. (1994). Architectural elements in nucleoprotein complexes interchangeabiUty of specific and non-specific DNA binding proteins. EMBO J. 13, 4536-4548. 

Hippel, P. H. von, Revzin, A., Gross, C. A., Wang, A. C. (1974). Non-specific DNA binding of genome regulating proteins as a biological control mechanism I. The lac operon Equilibrium aspects. Proc. Natl. Acad. Sci. USA 71,4808-4812. 

A negative control consisting of labelled DNA only. This indicates the extent to which labelled DNA hybridizes with itself or alternatively the extent of non-specific DNA binding by HA. 

Gagne et al, 2003). Some non-sequence-specific DNA-binding proteins, such as the linker histone HI, may even have a greater affinity for PAR than DNA (Malanga et al., 1998). Thus, an understanding of PAR is an important aspect of understanding the biology of PARP-1 and other PARPs. 

Dallas, P.B., Pacchione, S., Wilsker, D., Bowrin, V., Kobayashi, R., and Moran, E. (2000) The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. Mol. Cell. Biol. 20, 3137-3146. 

An interesting case of regulation at the translation level was discovered on the example of the homeodomain protein bicoid (bed), which is important in Drosophila differentiation (Dubnau and Struhl, 1996). The bicoid protein is a transcriptional activator that binds a cognate DNA element and stimulates the transcription of the neighboring genes. Apart from its specific DNA-binding capabUity, the bicoid protein binds to 3 -, non-translating sequences of the mRNA of another homeodomain protein (caudal protein) to inhibit its translation. 

Siderova NY, Muradymov S, Rau DC. Differences in hydration coupled to specific and non-specific compehhve binding and to specific DNA binding of the restriction endonuclease BamHI. J. Biol. Chem. 2006 281 35656-35666. 

Liu, Y. and Kulesz-Martin, M., p53 protein at the hub of cellular DNA damage response pathways through sequence-specific and non-sequence-specific DNA binding. Carcinogenesis, 22 (6), 851,2001. 

The membrane/film-based transducers have been widely applied in biosensors for the detection of DNA, enzymes, and antibodies due to their highly specific absorption/binding capability. Efforts are being made to further reduce the non-specific absorption/binding by modifying the membrane surface, the material of the membrane or the electrostatic charge of the surface. 

Both domains of the POU region bind to DNA by the usual combination of non specific binding to the DNA backbone and specific binding to the bases. The contacts between the homeodomain and DNA are similar to those of the engrailed homeodomain (compare Figures 9.10b and 9.15a) and the... 

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