Transposon molecular domestication and the evolution of the RAG recombinase

The RAG-2 Inhibitory Domain Gates Accessibility of the V(D)J Recombinase to Chromatin

(2018) Alyssa Ward et al.   MOLECULAR AND CELLULAR BIOLOGY

Cracking the DNA Code for V(D)J Recombination

(2018) Min-Sung Kim et al.   MOLECULAR CELL

DNA melting initiates the RAG catalytic pathway

(2018) Heng Ru et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

New insights into the evolutionary origins of the recombination-activating gene proteins and V(D)J recombination

(2017) Lina Marcela Carmona et al.   FEBS Journal

The RAG transposon is active through the deuterostome evolution and domesticated in jawed vertebrates

(2017) Jose Ricardo Morales Poole et al.   IMMUNOGENETICS

MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy

(2017) Shawn Q Zheng et al.   NATURE METHODS

Roles of the C-terminal domains of topoisomerase IIα and topoisomerase IIβ in regulation of the decatenation checkpoint

(2017) Toshiyuki Kozuki et al.   NUCLEIC ACIDS RESEARCH

Transposable Element Domestication As an Adaptation to Evolutionary Conflicts

(2017) Diwash Jangam et al.   TRENDS IN GENETICS

Discovery of an Active RAG Transposon Illuminates the Origins of V(D)J Recombination

(2016) Shengfeng Huang et al.   CELL

Gctf: Real-time CTF determination and correction

(2016) Kai Zhang   JOURNAL OF STRUCTURAL BIOLOGY

Detecting DNA double-stranded breaks in mammalian genomes by linear amplification–mediated high-throughput genome-wide translocation sequencing

(2016) Jiazhi Hu et al.   Nature Protocols

Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2

(2016) Dari Kimanius et al.   eLife

Molecular Mechanism of V(D)J Recombination from Synaptic RAG1-RAG2 Complex Structures

(2015) Heng Ru et al.   CELL

Assembly Pathway and Characterization of the RAG1/2-DNA Paired and Signal-end Complexes

(2015) Mikalai Lapkouski et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mapping and Quantitation of the Interaction between the Recombination Activating Gene Proteins RAG1 and RAG2

(2015) Yu-Hang Zhang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Crystal structure of the V(D)J recombinase RAG1–RAG2

(2015) Min-Sung Kim et al.   NATURE

Atomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement

(2015) Frank DiMaio et al.   NATURE METHODS

EMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy

(2015) Benjamin A Barad et al.   NATURE METHODS

An Autoregulatory Mechanism Imposes Allosteric Control on the V(D)J Recombinase by Histone H3 Methylation

(2015) Chao Lu et al.   Cell Reports

Genomic DNA transposition induced by human PGBD5

(2015) Anton G Henssen et al.   eLife

QA-RecombineIt: a server for quality assessment and recombination of protein models

(2013) Marcin Pawlowski et al.   NUCLEIC ACIDS RESEARCH

Structural Determinants at the Interface of the ARC2 and Leucine-Rich Repeat Domains Control the Activation of the Plant Immune Receptors Rx1 and Gpa2

(2013) E. J. Slootweg et al.   PLANT PHYSIOLOGY

The Human THAP9 Gene Encodes an Active P-Element DNA Transposase

(2013) S. Majumdar et al.   SCIENCE

RAG2’s Acidic Hinge Restricts Repair-Pathway Choice and Promotes Genomic Stability

(2013) Marc A. Coussens et al.   Cell Reports

A Dual Interaction between the DNA Damage Response Protein MDC1 and the RAG1 Subunit of the V(D)J Recombinase

(2012) Gideon Coster et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RELION: Implementation of a Bayesian approach to cryo-EM structure determination

(2012) Sjors H.W. Scheres   JOURNAL OF STRUCTURAL BIOLOGY

V(D)J Recombination: Mechanisms of Initiation

(2011) David G. Schatz et al.   Annual Review of Genetics

Dynamic interactions between transposable elements and their hosts

(2011) Henry L. Levin et al.   NATURE REVIEWS GENETICS

Features and development ofCoot

(2010) P. Emsley et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

PHENIX: a comprehensive Python-based system for macromolecular structure solution

(2010) Paul D. Adams et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Molecular domestication of transposable elements: From detrimental parasites to useful host genes

(2009) L. Sinzelle et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Structure of the RAG1 nonamer binding domain with DNA reveals a dimer that mediates DNA synapsis

(2009) Fang Fang Yin et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The origins of the Rag genes—From transposition to V(D)J recombination

(2009) Sebastian D. Fugmann   SEMINARS IN IMMUNOLOGY

Flexible Fitting of Atomic Structures into Electron Microscopy Maps Using Molecular Dynamics

(2008) Leonardo G. Trabuco et al.   STRUCTURE