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Showing 1–15 of 15 results
Advanced filters: Author: Konstantin V. Severinov Clear advanced filters
  • Identification of the antibiotic peptide KLB, from Klebsiella pneumoniae, which inhibits the growth of various Gram-negative bacteria by binding the nascent peptide exit tunnel on the large ribosomal subunit in a compact curled conformation, thereby stalling translation.

    • Mikhail Metelev
    • Ilya A Osterman
    • Yury S Polikanov
    Research
    Nature Chemical Biology
    Volume: 13, P: 1129-1136
  • BrxX methylase in complex with SAM cofactor mediates foreign DNA recognition by the BREX system. BrxX can be engineered to modify BREX specificity and enhance defense. BREX defense and methylation require assembly of supramolecular BrxBCXZ complex.

    • Alena Drobiazko
    • Myfanwy C. Adams
    • Artem Isaev
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-21
  • Structural and functional studies reveal how viral proteins trigger the phage antirestriction induced system (PARIS) to degrade host tRNA and how viral tRNAs suppress the PARIS nuclease and thereby overcome this phage defense system.

    • Nathaniel Burman
    • Svetlana Belukhina
    • Artem Isaev
    ResearchOpen Access
    Nature
    Volume: 634, P: 424-431
  • The RNA polymerase from the crAss-like bacteriophage phi14:2, which is translocated into the host cell with phage DNA and transcribes early phage genes, is structurally most similar to eukaryotic RNA interference polymerases, suggesting that the latter have a phage origin.

    • Arina V. Drobysheva
    • Sofia A. Panafidina
    • Maria L. Sokolova
    Research
    Nature
    Volume: 589, P: 306-309
  • Class 2 CRISPR–Cas systems are characterized by effector modules that consist of a single multidomain protein. In this Analysis, using a computational pipeline, the authors discover three novel families of class 2 effectors that correspond to three new CRISPR–Cas subtypes and present a comprehensive census of class 2 systems that are encoded in complete and draft bacterial and archaeal genomes.

    • Sergey Shmakov
    • Aaron Smargon
    • Eugene V. Koonin
    Research
    Nature Reviews Microbiology
    Volume: 15, P: 169-182
  • Sergey A. Shmakov et al. investigate the origin of the CRISPR spacers. They examine the distribution of partial matches between the spacers, viral genomes, and the host genomes and report that most of the spacers originate from host specific viromes. They demonstrate that most of the viruses are unknown although are likely related to known viruses.

    • Sergey A. Shmakov
    • Yuri I. Wolf
    • Eugene V. Koonin
    ResearchOpen Access
    Communications Biology
    Volume: 3, P: 1-9
  • In E. coli, disruption of TopoI and RNAP interaction decreases cells viability and leads to hypernegative DNA supercoiling and R loops accumulation. TopoI and DNA gyrase bind around transcription units and TopoI recognizes cleavage sites by a specific motif and negative supercoiling.

    • Dmitry Sutormin
    • Alina Galivondzhyan
    • Konstantin Severinov
    ResearchOpen Access
    Nature Communications
    Volume: 13, P: 1-19
  • Here, the authors investigate the diversity and dynamics of the CRISPRome in the hyperthermophilic archaea of the order Sulfolobales, and find the most abundant spacers to come from mini-CRISPR arrays of archaeal viruses, which might represent a strategy for superinfection exclusion and promotion of archaeal virus speciation.

    • Sofia Medvedeva
    • Ying Liu
    • Mart Krupovic
    ResearchOpen Access
    Nature Communications
    Volume: 10, P: 1-10
  • Primed adaptation in the CRISPR-Cas system helps recognition of previously encountered sequence elements and promotes the formation of new memories. Here the authors characterized spacer precursors of type I-E and type I-F CRISPR-Cas system using in vivo models.

    • Anna A. Shiriaeva
    • Ekaterina Savitskaya
    • Ekaterina Semenova
    ResearchOpen Access
    Nature Communications
    Volume: 10, P: 1-9
  • This computational protocol functionally links bacterial or archaeal genes within a dataset, enabling reliable functional predictions to be extracted for uncharacterized genes. As one example, the authors describe the ‘CRISPRicity’ metric to link genes to CRISPR–Cas systems.

    • Sergey A. Shmakov
    • Guilhem Faure
    • Eugene V. Koonin
    Protocols
    Nature Protocols
    Volume: 14, P: 3013-3031