Structure and dynamics study of translation initiation factor 1 from Staphylococcus aureus suggests its RNA binding mode.

Biochim Biophys Acta Proteins Proteom

The Research Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University, Gwanak-gu, Seoul 151-742, Republic of Korea. Electronic address:

Published: January 2017

Translation initiation, the rate-limiting step in the protein synthesis, is tightly regulated. As one of the translation initiation factors, translation initiation factor 1 (IF1) plays crucial roles not only in translation but also in many cellular processes that are important for genomic stability, such as the activity of RNA chaperones. Here, we characterize the RNA interactions and dynamics of IF1 from Staphylococcus aureus Mu50 (IF1) by NMR spectroscopy. First, the NMR-derived solution structure of IF1 revealed that IF1 adopts an oligonucleotide/oligosaccharide binding (OB)-fold. Structural comparisons showed large deviations in the α-helix and the following loop, which are potential RNA-binding regions of the OB-fold, as well as differences in the electrostatic potential surface among bacterial IF1s. Second, the N NMR relaxation data for IF1 indicated the flexible nature of the α-helix and the following loop region of IF1. Third, RNA-binding properties were studied using FP assays and NMR titrations. FP binding assays revealed that IF1 binds to RNAs with moderate affinity. In combination with the structural analysis, the NMR titration results revealed the RNA binding sites. Taken together, these results show that IF1 binds RNAs with moderate binding affinity via the residues that occupy the large surface area of its β-barrel. These findings suggest that IF1 is likely to bind RNA in various conformations rather than only at a specific site and indicate that the flexible RNA binding mode of IF1 is necessary for its interaction with various RNA substrates.

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.bbapap.2016.10.009DOI Listing

Publication Analysis

Top Keywords

translation initiation
16
rna binding
12
if1
11
initiation factor
8
staphylococcus aureus
8
binding mode
8
revealed if1
8
α-helix loop
8
if1 binds
8
binds rnas
8

Similar Publications

Predictors of Post-Acute Sequelae of COVID-19 in a Diverse Urban Population.

J Gen Intern Med

January 2025

Department of Medicine, Weill Cornell Medicine, 525 E 68th St., New York, NY, 10065, USA.

Background: Post-acute sequelae of SARS-CoV-2 infection (PASC) are ongoing, relapsing, or new symptoms present at least 3 months after infection. Predictors of PASC, particularly across diverse racial and ethnic groups, remain unclear.

Objectives: Assess the prevalence of PASC 1 year after infection, examining differences in PASC prevalence by the social construct of race.

View Article and Find Full Text PDF

Alcohol drinking leads to sex-dependent differentiation of T cells.

Eur J Trauma Emerg Surg

January 2025

Department of Trauma Surgery and Orthopedics, Goethe University, University Hospital, Frankfurt, Germany.

Objective: Global per capita alcohol consumption is increasing, posing significant socioeconomic and medical challenges also due to alcohol-related traumatic injuries but also its biological effects. Trauma as a leading cause of death in young adults, is often associated with an increased risk of complications, such as sepsis and multiple organ failure, due to immunological imbalances. Regulatory T cells play a crucial role in maintaining immune homeostasis by regulating the inflammatory response.

View Article and Find Full Text PDF

Dysregulated eIF4E-dependent translation is a central driver of tumorigenesis and therapy resistance. eIF4E binding proteins (4E-BP1/2/3) are major negative regulators of eIF4E-dependent translation that are inactivated in tumors through inhibitory phosphorylation or downregulation. Previous studies have linked PP2A phosphatase(s) to activation of 4E-BP1.

View Article and Find Full Text PDF

Metastatic uveal melanoma (UM) patients often initially present with limited symptoms despite a poor prognosis, complicating communication with patients and caregivers. Early Together (NCT04728113) is a randomized Phase III trial that integrates early palliative care through systematic joint visits involving the palliative care team and the medical oncologist, compared with standard oncological care, in 162 metastatic UM patients beginning systemic treatment. This collaboration aims to enhance patient functioning, improve quality of life and facilitate coping mechanisms.

View Article and Find Full Text PDF

Objective: Ciliary body medulloepithelioma (CBME), a pediatric intraocular tumor with potential for locally aggressive behavior and metastasis, may present with a diverse spectrum of clinical and histopathologic features leading to diagnostic and management challenges. Examination of unusual CBME cases highlights challenges and modern diagnostic techniques which facilitate accurate diagnosis and guide management.

Methods: A retrospective clinicopathologic analysis of 6 patients with unusual clinical or pathologic features of CBME was performed.

View Article and Find Full Text PDF

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!