Binding Rate Constants Reveal Distinct Features of Disordered Protein Domains. 2015

Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
Department of Medical Biochemistry and Microbiology, Uppsala University, BMC Box 582, SE-75123 Uppsala, Sweden.

Intrinsically disordered proteins (IDPs) are abundant in the proteome and involved in key cellular functions. However, experimental data about the binding kinetics of IDPs as a function of different environmental conditions are scarce. We have performed an extensive characterization of the ionic strength dependence of the interaction between the molten globular nuclear co-activator binding domain (NCBD) of CREB binding protein and five different protein ligands, including the intrinsically disordered activation domain of p160 transcriptional co-activators (SRC1, TIF2, ACTR), the p53 transactivation domain, and the folded pointed domain (PNT) of transcription factor ETS-2. Direct comparisons of the binding rate constants under identical conditions show that the association rate constant, kon, for interactions between NCBD and disordered protein domains is high at low salt concentrations (90-350 × 10(6) M(-1) s(-1) at 4 °C) but is reduced significantly (10-30-fold) with an increasing ionic strength and reaches a plateau around physiological ionic strength. In contrast, the kon for the interaction between NCBD and the folded PNT domain is only 7 × 10(6) M(-1) s(-1) (4 °C and low salt) and displays weak ionic strength dependence, which could reflect a distinctly different association that relies less on electrostatic interactions. Furthermore, the basal rate constant (in the absence of electrostatic interactions) is high for the NCBD interactions, exceeding those typically observed for folded proteins. One likely interpretation is that disordered proteins have a large number of possible collisions leading to a productive on-pathway encounter complex, while folded proteins are more restricted in terms of orientation. Our results highlight the importance of electrostatic interactions in binding involving IDPs and emphasize the significance of including ionic strength as a factor in studies that compare the binding properties of IDPs to those of ordered proteins.

UI MeSH Term Description Entries
D011994 Recombinant Proteins Proteins prepared by recombinant DNA technology. Biosynthetic Protein,Biosynthetic Proteins,DNA Recombinant Proteins,Recombinant Protein,Proteins, Biosynthetic,Proteins, Recombinant DNA,DNA Proteins, Recombinant,Protein, Biosynthetic,Protein, Recombinant,Proteins, DNA Recombinant,Proteins, Recombinant,Recombinant DNA Proteins,Recombinant Proteins, DNA
D006801 Humans Members of the species Homo sapiens. Homo sapiens,Man (Taxonomy),Human,Man, Modern,Modern Man
D014157 Transcription Factors Endogenous substances, usually proteins, which are effective in the initiation, stimulation, or termination of the genetic transcription process. Transcription Factor,Factor, Transcription,Factors, Transcription
D017434 Protein Structure, Tertiary The level of protein structure in which combinations of secondary protein structures (ALPHA HELICES; BETA SHEETS; loop regions, and AMINO ACID MOTIFS) pack together to form folded shapes. Disulfide bridges between cysteines in two different parts of the polypeptide chain along with other interactions between the chains play a role in the formation and stabilization of tertiary structure. Tertiary Protein Structure,Protein Structures, Tertiary,Tertiary Protein Structures
D017510 Protein Folding Processes involved in the formation of TERTIARY PROTEIN STRUCTURE. Protein Folding, Globular,Folding, Globular Protein,Folding, Protein,Foldings, Globular Protein,Foldings, Protein,Globular Protein Folding,Globular Protein Foldings,Protein Foldings,Protein Foldings, Globular

Related Publications

Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
January 2020, Methods in molecular biology (Clifton, N.J.),
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
August 2012, Physical chemistry chemical physics : PCCP,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
May 2017, Annual review of biophysics,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
May 2016, Proteins,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
January 2013, PloS one,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
April 2019, Essays in biochemistry,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
November 2018, Scientific reports,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
August 2008, Journal of biomolecular structure & dynamics,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
February 1994, European journal of biochemistry,
Jakob Dogan, and Josefin Jonasson, and Eva Andersson, and Per Jemth
October 2021, Open biology,
Copied contents to your clipboard!