Polarized localization of kinesin-1 and RIC-7 drives axonal mitochondria anterograde transport DOI Creative Commons
Youjun Wu, Chen Ding, Behrang Sharif

и другие.

The Journal of Cell Biology, Год журнала: 2024, Номер 223(5)

Опубликована: Март 12, 2024

Mitochondria transport is crucial for axonal mitochondria distribution and mediated by kinesin-1-based anterograde dynein-based retrograde motor complexes. While Miro Milton/TRAK were identified as key adaptors between kinesin-1, recent studies suggest the presence of additional mechanisms. In C. elegans, ric-7 only single gene described so far, other than that absolutely required localization. Using CRISPR engineering in we find important but not essential traffic, whereas it traffic. Both endogenous RIC-7 kinesin-1 act at leading end to anterogradely. binding requires its N-terminal domain partially relies on MIRO-1, accumulation depends disordered region, metaxin2. We conclude complexes containing polarize edge are elegans.

Язык: Английский

Insights into the modulation of bacterial NADase activity by phage proteins DOI Creative Commons
Hang Yin, Xuzichao Li, Xiaoshen Wang

и другие.

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Март 27, 2024

Abstract The Silent Information Regulator 2 (SIR2) protein is widely implicated in antiviral response by depleting the cellular metabolite NAD + . defense-associated sirtuin (DSR2) effector, a SIR2 domain-containing protein, protects bacteria from phage infection , while an anti-DSR2 (DSR anti-defense 1, DSAD1) employed some phages to evade this host defense. NADase activity of DSR2 unleashed recognizing tail tube (TTP). However, activation and inhibition mechanisms are unclear. Here, we determine cryo-EM structures multiple states. arranged as dimer dimers, which facilitated tetramerization domains. Moreover, assembly essential for activating function. activator TTP binding would trigger opening catalytic pocket decoupling N-terminal domain C-terminal (CTD) DSR2. Importantly, further show that mechanism conserved among other SIR2-dependent anti-phage systems. Interestingly, inhibitor DSAD1 mimics trap DSR2, thus occupying TTP-binding inhibiting Together, our results provide molecular insights into regulatory depletion immunity.

Язык: Английский

Процитировано

14
Structure of the plant plastid-encoded RNA polymerase DOI Creative Commons
Angel Vergara Cruces, Ishika Pramanick, David A. Pearce

и другие.

Cell, Год журнала: 2024, Номер 187(5), С. 1145 - 1159.e21

Опубликована: Фев. 1, 2024

Chloroplast genes encoding photosynthesis-associated proteins are predominantly transcribed by the plastid-encoded RNA polymerase (PEP). PEP is a multi-subunit complex composed of subunits similar to bacterial polymerases (RNAPs) stably bound set nuclear-encoded PEP-associated (PAPs). PAPs essential activity and chloroplast biogenesis, but their roles poorly defined. Here, we present cryoelectron microscopy (cryo-EM) structures native 21-subunit transcription elongation from white mustard (Sinapis alba). We identify that encase core polymerase, forming extensive interactions likely promote assembly stability. During elongation, interact with DNA downstream bubble nascent mRNA. The models reveal details superoxide dismutase, lysine methyltransferase, thioredoxin, amino acid ligase enzymes PEP. Collectively, these data provide foundation for mechanistic understanding its role in plant growth adaptation.

Язык: Английский

Процитировано

13
Akkermansia muciniphila exoglycosidases target extended blood group antigens to generate ABO-universal blood DOI
M. Jensen, Linn Stenfelt, Jennifer Ricci Hagman

и другие.

Nature Microbiology, Год журнала: 2024, Номер 9(5), С. 1176 - 1188

Опубликована: Апрель 29, 2024

Язык: Английский

Процитировано

13
Identifying protein conformational states in the Protein Data Bank: Toward unlocking the potential of integrative dynamics studies DOI Creative Commons
Joseph I. J. Ellaway, Stephen Anyango, Sreenath Nair

и другие.

Structural Dynamics, Год журнала: 2024, Номер 11(3)

Опубликована: Май 1, 2024

Studying protein dynamics and conformational heterogeneity is crucial for understanding biomolecular systems treating disease. Despite the deposition of over 215 000 macromolecular structures in Protein Data Bank advent AI-based structure prediction tools such as AlphaFold2, RoseTTAFold, ESMFold, static representations are typically produced, which fail to fully capture motion. Here, we discuss importance integrating experimental with computational clustering explore landscapes that manifest function. We describe method developed by Europe - Knowledge Base identify distinct states, demonstrate resource's primary use cases, through examples, need further efforts annotate conformations functional information. Such initiatives will be unlocking potential data, expediting drug discovery research, deepening our mechanisms.

Язык: Английский

Процитировано

13
An essential and highly selective protein import pathway encoded by nucleus-forming phage DOI Creative Commons
Chase J. Morgan, Eray Enüstün, Emily Armbruster

и другие.

Proceedings of the National Academy of Sciences, Год журнала: 2024, Номер 121(19)

Опубликована: Апрель 30, 2024

Targeting proteins to specific subcellular destinations is essential in prokaryotes, eukaryotes, and the viruses that infect them. Chimalliviridae phages encapsulate their genomes a nucleus-like replication compartment composed of protein chimallin (ChmA) excludes ribosomes decouples transcription from translation. These selectively partition between phage nucleus bacterial cytoplasm. Currently, genes signals govern selective import into are unknown. Here, we identify two components this pathway: species-specific surface-exposed region intranuclear required for nuclear entry conserved protein, PicA (Protein importer chimalliviruses A), facilitates cargo trafficking across shell. We also defective targeted on periphery but fails enter nucleus, providing insight mechanism trafficking. Using CRISPRi-ART expression knockdown PicA, show early chimallivirus cycle. Together, our results allow us propose multistep model Protein Import Chimallivirus pathway, where by amino acids surface then licensed entry. The divergence selectivity pathway closely related implicates its role as key player evolutionary arms race competing hosts.

Язык: Английский

Процитировано

10
Discovery of a Thermostable Tagatose 4-Epimerase Powered by Structure- and Sequence-Based Protein Clustering DOI
Jiajun Chen, Dawei Ni, Yingying Zhu

и другие.

Journal of Agricultural and Food Chemistry, Год журнала: 2024, Номер 72(33), С. 18585 - 18593

Опубликована: Авг. 12, 2024

d-Tagatose is a highly promising functional sweetener known for its various physiological functions. In this study, novel tagatose 4-epimerase from

Язык: Английский

Процитировано

10
A historical perspective on the multifunctional outer membrane channel protein TolC in Escherichia coli DOI Creative Commons
Michael Wright, Mandeep Kaur,

Laura K. Thompson

и другие.

npj Antimicrobials and Resistance, Год журнала: 2025, Номер 3(1)

Опубликована: Янв. 25, 2025

Since its discovery nearly 60 years ago, TolC has been associated with various cellular functions in Escherichia coli, including the efflux of environmental stressors and virulence factors. It also acts as a receptor for specific bacteriophages colicin E1 toxin. This review highlights key discoveries over past six decades emphasizes remaining gaps understanding how contributes to physiological E. coli.

Язык: Английский

Процитировано

2
Solute carriers: The gatekeepers of metabolism DOI
Artem Khan, Yuyang Liu, Mark Gad

и другие.

Cell, Год журнала: 2025, Номер 188(4), С. 869 - 884

Опубликована: Фев. 1, 2025

Язык: Английский

Процитировано

2
Nucleic-acid-induced ZCCHC3 condensation promotes broad innate immune responses DOI
Miao Shi, Tao Jiang, Mengfan Zhang

и другие.

Molecular Cell, Год журнала: 2025, Номер unknown

Опубликована: Фев. 1, 2025

Язык: Английский

Процитировано

1
Eukaryotic RNA-guided endonucleases evolved from a unique clade of bacterial enzymes DOI Creative Commons
Peter H. Yoon, Petr Skopintsev, Honglue Shi

и другие.

Nucleic Acids Research, Год журнала: 2023, Номер 51(22), С. 12414 - 12427

Опубликована: Ноя. 16, 2023

RNA-guided endonucleases form the crux of diverse biological processes and technologies, including adaptive immunity, transposition, genome editing. Some these enzymes are components insertion sequences (IS) in IS200/IS605 IS607 transposon families. Both IS families encode a TnpA transposase TnpB nuclease, an enzyme ancestral to CRISPR-Cas12s. In eukaryotes, homologs occur as two distinct types, Fanzor1s Fanzor2s. We analyzed evolutionary relationships between prokaryotic TnpBs eukaryotic Fanzors, which revealed that both Fanzor2s stem from single lineage with unusual active site arrangement. The widespread nature Fanzors implies properties this particular were particularly suited adaptation eukaryotes. Biochemical analysis common strategies employed by co-evolve their cognate transposases. Collectively, our results provide new model sequential evolution Fanzor2s, details how genes origin evolve give rise protein

Язык: Английский

Процитировано

21