Decoding the ubiquitin landscape by cutting-edge ubiquitinomic approaches
Biochem Soc Trans. 2024 Apr 4:BST20230457. doi: 10.1042/BST20230457. Online ahead of print.ABSTRACTFunctional consequences of protein ubiquitination have gone far beyond the degradation regulation as was initially imagined during its discovery 40 years back. The state-of-the-art has revealed the plethora of signaling pathways that are largely regulated by ubiquitination process in eukaryotes. To no surprise, ubiquitination is often dysregulated in many human diseases, including cancer, neurodegeneration and infection. Hence it has become a major focus with high-gain research value for many investigators to unravel new prot...
Source: Biochemical Society Transactions - April 4, 2024 Category: Biochemistry Authors: Brindhavanam P T Indrajit Sahu Source Type: research
Mechanically operated signalling scaffolds
Biochem Soc Trans. 2024 Apr 4:BST20221194. doi: 10.1042/BST20221194. Online ahead of print.ABSTRACTCellular signalling is a complex process and involves cascades of enzymes that, in response to a specific signal, give rise to exact cellular responses. Signalling scaffold proteins organise components of these signalling pathways in space and time to co-ordinate signalling outputs. In this review we introduce a new class of mechanically operated signalling scaffolds that are built into the cytoskeletal architecture of the cell. These proteins contain force-dependent binary switch domains that integrate chemical and mechanica...
Source: Biochemical Society Transactions - April 4, 2024 Category: Biochemistry Authors: Neil J Ball Samuel F H Barnett Benjamin T Goult Source Type: research
The SWI/SNF ATP-dependent chromatin remodeling complex in cell lineage priming and early development
Biochem Soc Trans. 2024 Apr 4:BST20230416. doi: 10.1042/BST20230416. Online ahead of print.ABSTRACTATP dependent chromatin remodelers have pivotal roles in transcription, DNA replication and repair, and maintaining genome integrity. SWI/SNF remodelers were first discovered in yeast genetic screens for factors involved in mating type switching or for using alternative energy sources therefore termed SWI/SNF complex (short for SWItch/Sucrose NonFermentable). The SWI/SNF complexes utilize energy from ATP hydrolysis to disrupt histone-DNA interactions and shift, eject, or reposition nucleosomes making the underlying DNA more a...
Source: Biochemical Society Transactions - April 4, 2024 Category: Biochemistry Authors: Dhurjhoti Saha Srinivas Animireddy Blaine Bartholomew Source Type: research
Decoding the ubiquitin landscape by cutting-edge ubiquitinomic approaches
Biochem Soc Trans. 2024 Apr 4:BST20230457. doi: 10.1042/BST20230457. Online ahead of print.ABSTRACTFunctional consequences of protein ubiquitination have gone far beyond the degradation regulation as was initially imagined during its discovery 40 years back. The state-of-the-art has revealed the plethora of signaling pathways that are largely regulated by ubiquitination process in eukaryotes. To no surprise, ubiquitination is often dysregulated in many human diseases, including cancer, neurodegeneration and infection. Hence it has become a major focus with high-gain research value for many investigators to unravel new prot...
Source: Biochemical Society Transactions - April 4, 2024 Category: Biochemistry Authors: Brindhavanam P T Indrajit Sahu Source Type: research
Mechanically operated signalling scaffolds
Biochem Soc Trans. 2024 Apr 4:BST20221194. doi: 10.1042/BST20221194. Online ahead of print.ABSTRACTCellular signalling is a complex process and involves cascades of enzymes that, in response to a specific signal, give rise to exact cellular responses. Signalling scaffold proteins organise components of these signalling pathways in space and time to co-ordinate signalling outputs. In this review we introduce a new class of mechanically operated signalling scaffolds that are built into the cytoskeletal architecture of the cell. These proteins contain force-dependent binary switch domains that integrate chemical and mechanica...
Source: Biochemical Society Transactions - April 4, 2024 Category: Biochemistry Authors: Neil J Ball Samuel F H Barnett Benjamin T Goult Source Type: research
The SWI/SNF ATP-dependent chromatin remodeling complex in cell lineage priming and early development
Biochem Soc Trans. 2024 Apr 4:BST20230416. doi: 10.1042/BST20230416. Online ahead of print.ABSTRACTATP dependent chromatin remodelers have pivotal roles in transcription, DNA replication and repair, and maintaining genome integrity. SWI/SNF remodelers were first discovered in yeast genetic screens for factors involved in mating type switching or for using alternative energy sources therefore termed SWI/SNF complex (short for SWItch/Sucrose NonFermentable). The SWI/SNF complexes utilize energy from ATP hydrolysis to disrupt histone-DNA interactions and shift, eject, or reposition nucleosomes making the underlying DNA more a...
Source: Biochemical Society Transactions - April 4, 2024 Category: Biochemistry Authors: Dhurjhoti Saha Srinivas Animireddy Blaine Bartholomew Source Type: research
Decoding the ubiquitin landscape by cutting-edge ubiquitinomic approaches
Biochem Soc Trans. 2024 Apr 4:BST20230457. doi: 10.1042/BST20230457. Online ahead of print.ABSTRACTFunctional consequences of protein ubiquitination have gone far beyond the degradation regulation as was initially imagined during its discovery 40 years back. The state-of-the-art has revealed the plethora of signaling pathways that are largely regulated by ubiquitination process in eukaryotes. To no surprise, ubiquitination is often dysregulated in many human diseases, including cancer, neurodegeneration and infection. Hence it has become a major focus with high-gain research value for many investigators to unravel new prot...
Source: Biochemical Society Transactions - April 4, 2024 Category: Biochemistry Authors: Brindhavanam P T Indrajit Sahu Source Type: research
Solid-state nuclear magnetic resonance in the structural study of polyglutamine aggregation
Biochem Soc Trans. 2024 Apr 2:BST20230731. doi: 10.1042/BST20230731. Online ahead of print.ABSTRACTThe aggregation of proteins into amyloid-like fibrils is seen in many neurodegenerative diseases. Recent years have seen much progress in our understanding of these misfolded protein inclusions, thanks to advances in techniques such as solid-state nuclear magnetic resonance (ssNMR) spectroscopy and cryogenic electron microscopy (cryo-EM). However, multiple repeat-expansion-related disorders have presented special challenges to structural elucidation. This review discusses the special role of ssNMR analysis in the study of pro...
Source: Biochemical Society Transactions - April 2, 2024 Category: Biochemistry Authors: Patrick C A van der Wel Source Type: research
The molecular mechanisms driving Plasmodium cell division
Biochem Soc Trans. 2024 Apr 2:BST20230403. doi: 10.1042/BST20230403. Online ahead of print.ABSTRACTMalaria, a vector borne disease, is a major global health and socioeconomic problem caused by the apicomplexan protozoan parasite Plasmodium. The parasite alternates between mosquito vector and vertebrate host, with meiosis in the mosquito and proliferative mitotic cell division in both hosts. In the canonical eukaryotic model, cell division is either by open or closed mitosis and karyokinesis is followed by cytokinesis; whereas in Plasmodium closed mitosis is not directly accompanied by concomitant cell division. Key molecul...
Source: Biochemical Society Transactions - April 2, 2024 Category: Biochemistry Authors: David S Guttery Mohammad Zeeshan Anthony A Holder Rita Tewari Source Type: research
Delineating mechanisms underlying parvalbumin neuron impairment in different neurological and neurodegenerative disorders: the emerging role of mitochondrial dysfunction
Biochem Soc Trans. 2024 Apr 2:BST20230191. doi: 10.1042/BST20230191. Online ahead of print.ABSTRACTGiven the current paucity of effective treatments in many neurological disorders, delineating pathophysiological mechanisms among the major psychiatric and neurodegenerative diseases may fuel the development of novel, potent treatments that target shared pathways. Recent evidence suggests that various pathological processes, including bioenergetic failure in mitochondria, can perturb the function of fast-spiking, parvalbumin-positive neurons (PV+). These inhibitory neurons critically influence local circuit regulation, the ge...
Source: Biochemical Society Transactions - April 2, 2024 Category: Biochemistry Authors: Elizaveta A Olkhova Laura A Smith Bethany H Dennis Yi Shiau Ng Fiona E N LeBeau Gr áinne S Gorman Source Type: research
Solid-state nuclear magnetic resonance in the structural study of polyglutamine aggregation
Biochem Soc Trans. 2024 Apr 2:BST20230731. doi: 10.1042/BST20230731. Online ahead of print.ABSTRACTThe aggregation of proteins into amyloid-like fibrils is seen in many neurodegenerative diseases. Recent years have seen much progress in our understanding of these misfolded protein inclusions, thanks to advances in techniques such as solid-state nuclear magnetic resonance (ssNMR) spectroscopy and cryogenic electron microscopy (cryo-EM). However, multiple repeat-expansion-related disorders have presented special challenges to structural elucidation. This review discusses the special role of ssNMR analysis in the study of pro...
Source: Biochemical Society Transactions - April 2, 2024 Category: Biochemistry Authors: Patrick C A van der Wel Source Type: research
The molecular mechanisms driving Plasmodium cell division
Biochem Soc Trans. 2024 Apr 2:BST20230403. doi: 10.1042/BST20230403. Online ahead of print.ABSTRACTMalaria, a vector borne disease, is a major global health and socioeconomic problem caused by the apicomplexan protozoan parasite Plasmodium. The parasite alternates between mosquito vector and vertebrate host, with meiosis in the mosquito and proliferative mitotic cell division in both hosts. In the canonical eukaryotic model, cell division is either by open or closed mitosis and karyokinesis is followed by cytokinesis; whereas in Plasmodium closed mitosis is not directly accompanied by concomitant cell division. Key molecul...
Source: Biochemical Society Transactions - April 2, 2024 Category: Biochemistry Authors: David S Guttery Mohammad Zeeshan Anthony A Holder Rita Tewari Source Type: research
Delineating mechanisms underlying parvalbumin neuron impairment in different neurological and neurodegenerative disorders: the emerging role of mitochondrial dysfunction
Biochem Soc Trans. 2024 Apr 2:BST20230191. doi: 10.1042/BST20230191. Online ahead of print.ABSTRACTGiven the current paucity of effective treatments in many neurological disorders, delineating pathophysiological mechanisms among the major psychiatric and neurodegenerative diseases may fuel the development of novel, potent treatments that target shared pathways. Recent evidence suggests that various pathological processes, including bioenergetic failure in mitochondria, can perturb the function of fast-spiking, parvalbumin-positive neurons (PV+). These inhibitory neurons critically influence local circuit regulation, the ge...
Source: Biochemical Society Transactions - April 2, 2024 Category: Biochemistry Authors: Elizaveta A Olkhova Laura A Smith Bethany H Dennis Yi Shiau Ng Fiona E N LeBeau Gr áinne S Gorman Source Type: research
Compatibility of termination mechanisms in bacterial transcription with inference on eukaryotic models
Biochem Soc Trans. 2024 Mar 27:BST20231229. doi: 10.1042/BST20231229. Online ahead of print.ABSTRACTTranscription termination has evolved to proceed through diverse mechanisms. For several classes of terminators, multiple models have been debatably proposed. Recent single-molecule studies on bacterial terminators have resolved several long-standing controversies. First, termination mode or outcome is twofold rather than single. RNA is released alone before DNA or together with DNA from RNA polymerase (RNAP), i.e. with RNA release for termination, RNAP retains on or dissociates off DNA, respectively. The concomitant release...
Source: Biochemical Society Transactions - March 27, 2024 Category: Biochemistry Authors: Eunho Song Sun Han Sungchul Hohng Changwon Kang Source Type: research
The application of single-molecule optical tweezers to study disease-related structural dynamics in RNA
Biochem Soc Trans. 2024 Mar 27:BST20231232. doi: 10.1042/BST20231232. Online ahead of print.ABSTRACTRNA, a dynamic and flexible molecule with intricate three-dimensional structures, has myriad functions in disease development. Traditional methods, such as X-ray crystallography and nuclear magnetic resonance, face limitations in capturing real-time, single-molecule dynamics crucial for understanding RNA function. This review explores the transformative potential of single-molecule force spectroscopy using optical tweezers, showcasing its capability to directly probe time-dependent structural rearrangements of individual RNA...
Source: Biochemical Society Transactions - March 27, 2024 Category: Biochemistry Authors: Tycho Marinus Toshana L Foster Katarzyna M Tych Source Type: research
