Intrinsic disorder and salt-dependent conformational changes of the N-terminal region of TFIP11 splicing factor.

Int J Biol Macromol

Laboratory of Physical Chemistry of Biomolecules, UCPTS, University of Namur, Rue de Bruxelles 61, B-5000 Namur, Belgium; Namur Research Institute for Life Sciences (NARILIS), University of Namur, Namur, Belgium; Namur Institute of Structured Matter (NISM), University of Namur, Namur, Belgium. Elect

Published: October 2024


Category Ranking

98%

Total Visits

921

Avg Visit Duration

2 minutes

Citations

20

Article Abstract

Tuftelin Interacting Protein 11 (TFIP11) was identified as a critical human spliceosome assembly regulator, interacting with multiple proteins and localising in membrane-less organelles. However, a lack of structural information on TFIP11 limits the rationalisation of its biological role. TFIP11 is predicted as an intrinsically disordered protein (IDP), and more specifically concerning its N-terminal (N-TER) region. IDPs lack a defined tertiary structure, existing as a dynamic conformational ensemble, favouring protein-protein and protein-RNA interactions. IDPs are involved in liquid-liquid phase separation (LLPS), driving the formation of subnuclear compartments. Combining disorder prediction, molecular dynamics, and spectroscopy methods, this contribution shows the first evidence TFIP11 N-TER is a polyampholytic IDP, exhibiting a structural duality with the coexistence of ordered and disordered assemblies, depending on the ionic strength. Increasing the salt concentration enhances the protein conformational flexibility, presenting a more globule-like shape, and a fuzzier unstructured arrangement that could favour LLPS and protein-RNA interaction. The most charged and hydrophilic regions are the most impacted, including the G-Patch domain essential to TFIP11 function. This study gives a better understanding of the salt-dependent conformational behaviour of the N-TER TFIP11, supporting the hypothesis of the formation of different types of protein assembly, in line with its multiple biological roles.

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ijbiomac.2024.134291DOI Listing

Publication Analysis

Top Keywords

salt-dependent conformational
8
tfip11
7
intrinsic disorder
4
disorder salt-dependent
4
conformational
4
conformational changes
4
changes n-terminal
4
n-terminal region
4
region tfip11
4
tfip11 splicing
4

Similar Publications

Transition and Regulation of MicroRNA Let-7a Conformation at the Membrane Interface by Different Ionic Solutions.

J Phys Chem B

August 2025

School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China.

The Lethal 7 (Let-7) miRNA family is attracting more and more attention in recent decades due to its capability in post-transcriptional regulation and the modulation of various physiological and pathological processes. Yet, the underlying mechanism that controls the conformation and biofunctions of Let-7 molecules during their translocation in and out of the cell membrane is still elusive. In the present study, the sum frequency generation vibrational spectroscopy (SFG-VS), a second-order nonlinear spectroscopic technique, was applied to examine the interfacial behavior of Let-7a at the lipid membrane interface.

View Article and Find Full Text PDF

Multi-factor interactions in myosin gelation: Unraveling the ultrasound-NaCl synergy through structural and thermal properties perspectives.

Int J Biol Macromol

September 2025

Key Laboratory of Geriatric Nutrition and Health, Ministry of Education, School of Food and Health, Beijing Technology and Business University, Beijing 100048, China. Electronic address:

This study investigated the synergistic effects of high-intensity ultrasound (HIU, 20 kHz, 13.4 W/cm, 3 min) and varying NaCl concentrations (0, 0.3, 0.

View Article and Find Full Text PDF

Many bioactive compounds target DNA, making ligand-DNA binding studies essential for developing new therapeutics. These interactions provide insight into how small molecules can bind to DNA and inhibit processes like replication and transcription, influencing gene-expression. Ajmalicine (AJM), while extensively studied for its pharmacological properties, has not been fully elucidated in its nucleic acid(s) binding mode.

View Article and Find Full Text PDF

Adapting to salinity: structural dynamics of the DNA polymerase III beta subunit in Salinibacter ruber.

Extremophiles

March 2025

Microbial Adaptation Laboratory, Department of Microbiology, Tripura University (A Central University), Agartala, Tripura, 799022, India.

Halophilic bacteria thrive in high-salt environments through structural modifications in their proteins. One such adaptation is seen in the DNA polymerase III beta subunit, which acts as a "sliding clamp" for the DNA polymerase III, the replication machinery's key enzyme. Like other halophilic proteins, DNA Pol III beta of Salinibacter ruber displays an increased concentration of acidic amino acids, intrinsically disordered regions, and a negatively charged surface.

View Article and Find Full Text PDF

Eukaryotic DNA is packaged in the cell nucleus into chromatin, composed of arrays of DNA-histone protein octamer complexes, the nucleosomes. Over the past decade, it has become clear that chromatin structure in vivo is not a hierarchy of well-organized folded nucleosome fibers but displays considerable conformational variability and heterogeneity. In vitro and in vivo studies, as well as computational modeling, have revealed that attractive nucleosome-nucleosome interaction with an essential role of nucleosome stacking defines chromatin compaction.

View Article and Find Full Text PDF