Article
Biochemistry & Molecular Biology
Carol H. Pong, Christopher J. Harmer, Janine K. Flores, Sandro F. Ataide, Ruth M. Hall
Summary: Research shows that the helix-turn-helix and disordered domains of Tnp26 in the IS26 family play a role in the formation of the Tnp26-TIR complex, and these domains are conserved in all members of the IS26 family.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Mahmudul Hasan, Daniel G. S. Capelluto
Summary: This study determined the concurrence of the PH-FYVE module with the polyD motif in Phafin2 protein using bioinformatics tools and resources. It was found that the polyD motif only evolved in Phafin2 and PH- or both PH-FYVE-containing proteins in animals.
Review
Cell Biology
Laura Prendergast, Danny Reinberg
Summary: Recent advances in chromatin and epigenetics research have highlighted the significance of core histones, histone variants, and their post-translational modifications in regulating chromatin structure. The role of linker histone H1, which was previously understudied, has come into focus due to its evolutionary conservation, variability in PTMs, and unique functions across different cell types. Contrary to previous assumptions, histone H1 variants are now recognized for their independent roles in various chromatin-based processes, challenging the traditional view of their function solely in chromatin compaction and transcriptional repression.
GENES & DEVELOPMENT
(2021)
Article
Multidisciplinary Sciences
Sachiko Fujiwara, Thanh Phuong Nguyen, Kyoko Furuse, Yugo Fukazawa, Tetsuhisa Otani, Mikio Furuse
Summary: The interaction of claudins with ZO proteins is not a prerequisite for tight junction formation at the most apical part of cell-cell contacts.
ANNALS OF THE NEW YORK ACADEMY OF SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Pooppadi Maxin Sayeesh, Mayumi Iguchi, Yusuke Suemoto, Jin Inoue, Kohsuke Inomata, Teppei Ikeya, Yutaka Ito
Summary: Drk, a homologue of human GRB2 in Drosophila, receives signals from outside the cells through the interaction of its SH2 domain with the phospho-tyrosine residues in the intracellular regions of receptor tyrosine kinases (RTKs) and transduces the signals downstream through the association of its N- and C-terminal SH3 domains with proline-rich motifs (PRMs) in Son of Sevenless (Sos) or Daughter of Sevenless (Dos). The affinity of the SH3 domains towards Sos and Dos was assessed using NMR titration experiments, revealing that Sos-S1 binds to Drk-NSH3 with the highest affinity and that the two Sos-derived PRMs favor NSH3 for binding, while the two Dos-derived PRMs show similar affinity for both NSH3 and CSH3. Docking simulations based on chemical shift perturbations caused by Sos and Dos-derived peptides were also performed to further understand the interactions of Drk with Sos/Dos.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Medha, Priyanka, Parul Bhatt, Sadhna Sharma, Monika Sharma
Summary: This study investigates the role of the unique C-terminal of Mycobacterium tuberculosis's (Mtb) PE6/Rv0335c protein in causing host mitochondrial perturbations and apoptosis. The experiments confirm that the deletion of the C-terminal domain significantly reduces mitochondrial perturbations and apoptosis, while not affecting the protein's localization to mitochondria. Additionally, the study shows that the protein increases intracellular calcium influx, with the C-terminal deletion having minimal effect on calcium influx. These findings suggest that Rv0335c may mimic eukaryotic Bcl2 proteins, leading to host mitochondrial perturbations and apoptosis.
Article
Biotechnology & Applied Microbiology
Bin Li, Shurong Liu, Wujian Zheng, Anrui Liu, Peng Yu, Di Wu, Jie Zhou, Ping Zhang, Chang Liu, Qiao Lin, Jiayi Ye, Simeng He, Qiaojuan Huang, Hui Zhou, Jianjun Chen, Lianghu Qu, Jianhua Yang
Summary: A new method called RIP-PEN-seq was developed to identify the full-length sequences of RNAs bound by the K-turn binding protein 15.5K. This study discovered a previously unknown class of RNAs with backward K-turn motifs (bktRNAs) in humans and mice. These bktRNAs share two consensus sequence motifs at their fixed terminal position and have complex folding properties, expression and evolution patterns. The research also revealed that bktRNA1 guides the methyltransferase fibrillarin to install RNA methylation of U12 small nuclear RNA in humans.
NATURE BIOTECHNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Subhra Kanti Das, Ashok Kumar, Fanfan Hao, Amber R. Cutter Dipiazza, He Fang, Tae-Hee Lee, Jeffrey J. Hayes
Summary: The H1 C-terminal domain (CTD) undergoes distinct static and dynamic structural changes upon binding to nucleosomes, which can be decondensed through acetylation. The interactions between H1 CTD and linker DNA primarily occur between the first 30 residues of CTD and the first -25 bp of linker DNA.
JOURNAL OF MOLECULAR BIOLOGY
(2023)
Article
Neurosciences
Atsushi Shimohata, Dilip Rai, Takumi Akagi, Sumiko Usui, Ikuo Ogiwara, Makoto Kaneda
Summary: In this study, the subcellular localization of mGluR6 CTD mutants in 293T cells was investigated using immunocytochemistry, immunoprecipitation, and flow cytometry. The results showed that mGluR6 mutants with 15- and 20-amino acid deletions from the C terminus localized to the ER and were deficient at the cell surface. Introducing an alanine substitution at basic residues within the CTD rescued the surface deficiency of mGluR6 mutants.
MOLECULAR AND CELLULAR NEUROSCIENCE
(2023)
Article
Zoology
Andrzej Kowalski
Summary: The study reveals polymorphic variability of the H1.c' histone in Muscovy ducks, with different allelic variants potentially influencing the ADP-ribosylation levels. The population shows signs of inbreeding due to lower observed heterozygotes than expected. Different H1.c' allelic variants exhibit specific associations with ADP-ribosylation levels, suggesting individual roles in determining histone H1 subtype modification status.
EUROPEAN ZOOLOGICAL JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Florian Cymer, Dirk Schneider
Summary: Human single-span transmembrane helices often contain small residues and motifs, playing an important role in mediating and stabilizing helix oligomers. Despite the common interaction of these helices, the exact role of small residues in helix dimerization remains unclear. Experimental evidence suggests that mutations of small residues to isoleucine actually enhance helix-helix interactions within the membrane, possibly due to reduced helix flexibility and protein-lipid contacts.
Article
Immunology
Helen A. Beilinson, Rebecca A. Glynn, Anurupa Devi Yadavalli, Jianxiong Xiao, Elizabeth Corbett, Huseyin Saribasak, Rahul Arya, Charline Miot, Anamika Bhattacharyya, Jessica M. Jones, Jagan M. R. Pongubala, Craig H. Bassing, David G. Schatz
Summary: The RAG1 N-terminal region regulates V(D)J recombination and lymphocyte development through multiple pathways, including control of the balance between short- and long-range recombination, as shown in studies with different RAG1 mutant mice.
JOURNAL OF EXPERIMENTAL MEDICINE
(2021)
Article
Biochemistry & Molecular Biology
David R. Benson, Bin Deng, Maithri M. Kashipathy, Scott Lovell, Kevin P. Battaile, Anne Cooper, Philip Gao, Aron W. Fenton, Hao Zhu
Summary: NADH cytochrome b(5) oxidoreductase (Ncb5or) is a cytosolic ferric reductase implicated in diabetes and neurological conditions. The study reveals for the first time an ancient origin of a helical motif in the N/b(5) module.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
(2023)
Article
Chemistry, Medicinal
Shruti Koulgi, Archana Achalere, Uddhavesh Sonavane, Rajendra Joshi
Summary: This study investigated the conformational variations of p53 at different temperatures using molecular dynamics simulations and Markov State Modeling analysis. The results revealed that p53 exhibits reduced functionality and weakened DNA binding ability at physiological temperatures. Potential target regions to overcome this temperature sensitivity were also identified.
JOURNAL OF CHEMICAL INFORMATION AND MODELING
(2022)
Review
Biochemistry & Molecular Biology
Ankita Saha, Yamini Dalal
Summary: Histone H1s, a family of chromatin compacting proteins, play essential roles in higher-order chromatin organization. Recent research suggests that different H1 family members have distinct affinities for chromatin and may impact different functions. Advances in technology have improved our understanding of how H1 interacts with chromatin and its importance in epigenetics.