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Title: Casposase structure and the mechanistic link between DNA transposition and spacer acquisition by CRISPR-Cas

Journal Article · · eLife
DOI:https://doi.org/10.7554/elife.50004· OSTI ID:1833697
ORCiD logo [1]; ORCiD logo [1];  [2];  [2]; ORCiD logo [1]
  1. National Institutes of Health (NIH), Bethesda, MD (United States). Lab. of Molecular Biology. National Inst. of Diabetes and Digestive and Kidney Diseases
  2. National Institutes of Health (NIH), Bethesda, MD (United States). Lab. of Cell and Molecular Biology. National Inst. of Diabetes and Digestive and Kidney Diseases

Key to CRISPR-Cas adaptive immunity is maintaining an ongoing record of invading nucleic acids, a process carried out by the Cas1-Cas2 complex that integrates short segments of foreign genetic material (spacers) into the CRISPR locus. It is hypothesized that Cas1 evolved from casposases, a novel class of transposases. We show here that the Methanosarcina mazei casposase can integrate varied forms of the casposon end in vitro, and recapitulates several properties of CRISPR-Cas integrases including site-specificity. The X-ray structure of the casposase bound to DNA representing the product of integration reveals a tetramer with target DNA bound snugly between two dimers in which single-stranded casposon end binding resembles that of spacer 3'-overhangs. The differences between transposase and CRISPR-Cas integrase are largely architectural, and it appears that evolutionary change involved changes in protein-protein interactions to favor Cas2 binding over tetramerization; this in turn led to preferred integration of single spacers over two transposon ends.

Research Organization:
Argonne National Laboratory (ANL), Argonne, IL (United States). Advanced Photon Source (APS)
Sponsoring Organization:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
OSTI ID:
1833697
Journal Information:
eLife, Vol. 9; ISSN 2050-084X
Publisher:
eLife Sciences Publications, Ltd.Copyright Statement
Country of Publication:
United States
Language:
ENGLISH

References (56)

How type II CRISPR–Cas establish immunity through Cas1–Cas2-mediated spacer integration journal September 2017
Casposons: a new superfamily of self-synthesizing DNA transposons at the origin of prokaryotic CRISPR-Cas immunity journal May 2014
Mobile Genetic Elements and Evolution of CRISPR-Cas Systems: All the Way There and Back journal September 2017
Overview of the CCP 4 suite and current developments journal March 2011
Spacer capture and integration by a type I-F Cas1–Cas2-3 CRISPR adaptation complex journal June 2017
Adaptation in CRISPR-Cas Systems journal March 2016
Structures of the CRISPR genome integration complex journal July 2017
The mechanism of retroviral integration from X-ray structures of its key intermediates journal November 2010
Quantitative mass imaging of single biological macromolecules journal April 2018
CRISPR Provides Acquired Resistance Against Viruses in Prokaryotes journal March 2007
Generation, representation and flow of phase information in structure determination: recent developments in and around SHARP 2.0 journal October 2003
Casposon integration shows strong target site preference and recapitulates protospacer integration by CRISPR-Cas systems journal September 2016
Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems journal November 2015
Foreign DNA capture during CRISPR–Cas adaptive immunity journal October 2015
Inference of Macromolecular Assemblies from Crystalline State journal September 2007
Diverse evolutionary roots and mechanistic variations of the CRISPR-Cas systems journal August 2016
A Functional Mini-Integrase in a Two-Protein Type V-C CRISPR System journal February 2019
Intrinsic sequence specificity of the Cas1 integrase directs new spacer acquisition journal August 2015
RAG1 Core and V(D)J Recombination Signal Sequences Were Derived from Transib Transposons journal May 2005
Structural and Mechanistic Basis of PAM-Dependent Spacer Acquisition in CRISPR-Cas Systems journal November 2015
CRISPR–Cas adaptation: insights into the mechanism of action journal January 2016
The Mu transpososome structure sheds light on DDE recombinase evolution journal November 2012
Characterizing leader sequences of CRISPR loci journal September 2016
Prespacer processing and specific integration in a Type I-A CRISPR system journal December 2017
Sequence motifs recognized by the casposon integrase of Aciduliprofundum boonei journal May 2019
New insights into the evolutionary origins of the recombination‐activating gene proteins and V(D)J recombination journal January 2017
Recent Mobility of Casposons, Self-Synthesizing Transposons at the Origin of the CRISPR-Cas Immunity journal January 2016
Cas1–Cas2 complex formation mediates spacer acquisition during CRISPR–Cas adaptive immunity journal May 2014
CRISPR Immunological Memory Requires a Host Factor for Specificity journal June 2016
Integrase-mediated spacer acquisition during CRISPR–Cas adaptive immunity journal February 2015
Transposases are the most abundant, most ubiquitous genes in nature journal March 2010
Structural Basis for DNase Activity of a Conserved Protein Implicated in CRISPR-Mediated Genome Defense journal June 2009
PHENIX: a comprehensive Python-based system for macromolecular structure solution journal January 2010
The casposon-encoded Cas1 protein from Aciduliprofundum boonei is a DNA integrase that generates target site duplications journal November 2015
Classification and Nomenclature of CRISPR-Cas Systems: Where from Here? journal October 2018
CRISPR-Cas: Adapting to change journal April 2017
Version 1.2 of the Crystallography and NMR system journal October 2007
Mechanism of IS200/IS605 Family DNA Transposases: Activation and Transposon-Directed Target Site Selection journal January 2008
Casposons: mobile genetic elements that gave rise to the CRISPR-Cas adaptation machinery journal August 2017
Proteins and DNA elements essential for the CRISPR adaptation process in Escherichia coli journal February 2012
Crystal structure of Cas1 from Archaeoglobus fulgidus and characterization of its nucleolytic activity journal November 2013
V(D)J Recombination: Mechanisms of Initiation journal December 2011
CRISPR-Cas immunity in prokaryotes journal October 2015
Molecular mechanisms of CRISPR–Cas spacer acquisition journal August 2018
Direct CRISPR spacer acquisition from RNA by a natural reverse transcriptase-Cas1 fusion protein journal February 2016
CRISPR-Cas Systems Optimize Their Immune Response by Specifying the Site of Spacer Integration journal November 2016
CRISPR–Cas in mobile genetic elements: counter-defence and beyond journal June 2019
New CRISPR–Cas systems from uncultivated microbes journal December 2016
PHENIX: a comprehensive Python-based system for macromolecular structure solution. text January 2010
Overview of the CCP4 suite and current developments. text January 2011
Advances in direct methods for protein crystallography journal October 1999
Foreign DNA capture during CRISPR–Cas adaptive immunity journal June 2016
Receptor binding and priming of the spike protein of SARS-CoV-2 for membrane fusion journal September 2020
The basic building blocks and evolution of CRISPR–Cas systems journal November 2013
Zero-dose extrapolation as part of macromolecular synchrotron data reduction journal April 2003
Everyman's Guide to Bacterial Insertion Sequences journal April 2015

Cited By (1)

The CARF Protein MM_0565 Affects Transcription of the Casposon-Encoded cas1-solo Gene in Methanosarcina mazei Gö1 journal August 2020

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