Structural basis of long-range to short-range synaptic transition in NHEJ

Structure of an activated DNA-PK and its implications for NHEJ

(2021) Xuemin Chen et al.   MOLECULAR CELL

The active DNA-PK holoenzyme occupies a tensed state in a staggered synaptic complex

(2021) Morgan Hepburn et al.   STRUCTURE

Improved protein structure prediction using predicted interresidue orientations

(2020) Jianyi Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cryo-EM structure of SWI/SNF complex bound to a nucleosome

(2020) Yan Han et al.   NATURE

The molecular basis and disease relevance of non-homologous DNA end joining

(2020) Bailin Zhao et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Dimers of DNA-PK create a stage for DNA double-strand break repair

(2020) Amanda K. Chaplin et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Uncovering DNA-PKcs ancient phylogeny, unique sequence motifs and insights for human disease

(2020) James P. Lees-Miller et al.   PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY

XLF acts as a flexible connector during non-homologous end joining

(2020) Sean M Carney et al.   eLife

SSEThread: Integrative threading of the DNA-PKcs sequence based on data from chemical cross-linking and hydrogen deuterium exchange

(2019) Daniel J. Saltzberg et al.   PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY

A Mechanism to Minimize Errors during Non-homologous End Joining

(2019) Benjamin M. Stinson et al.   MOLECULAR CELL

Structures of DNA-bound human ligase IV catalytic core reveal insights into substrate binding and catalysis

(2018) Andrea M. Kaminski et al.   Nature Communications

ISOLDE: a physically realistic environment for model building into low-resolution electron-density maps

(2018) Tristan Ian Croll   Acta Crystallographica Section D-Structural Biology

Real-space refinement in PHENIX for cryo-EM and crystallography

(2018) Pavel V. Afonine et al.   Acta Crystallographica Section D-Structural Biology

A single XLF dimer bridges DNA ends during nonhomologous end joining

(2018) Thomas G. W. Graham et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

XLF and APLF bind Ku80 at two remote sites to ensure DNA repair by non-homologous end joining

(2018) Clement Nemoz et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Ribonucleotide incorporation enables repair of chromosome breaks by nonhomologous end joining

(2018) John M. Pryor et al.   SCIENCE

COSMIC: the Catalogue Of Somatic Mutations In Cancer

(2018) John G Tate et al.   NUCLEIC ACIDS RESEARCH

New tools for automated high-resolution cryo-EM structure determination in RELION-3

(2018) Jasenko Zivanov et al.   eLife

Effects of DNA end configuration on XRCC4-DNA ligase IV and its stimulation of Artemis activity

(2017) Christina A. Gerodimos et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination

(2017) Ali Punjani et al.   NATURE METHODS

Cryo-EM structure of the DNA-PK holoenzyme

(2017) Humayun Sharif et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA-PKcs structure suggests an allosteric mechanism modulating DNA double-strand break repair

(2017) Bancinyane L. Sibanda et al.   SCIENCE

DNA Ligase IV Guides End-Processing Choice during Nonhomologous End Joining

(2017) Michael P. Conlin et al.   Cell Reports

Mutational phospho-mimicry reveals a regulatory role for the XRCC4 and XLF C-terminal tails in modulating DNA bridging during classical non-homologous end joining

(2017) Davide Normanno et al.   eLife

Structures of closed and open conformations of dimeric human ATM

(2017) Domagoj Baretić et al.   Science Advances

An Intrinsically Disordered APLF Links Ku, DNA-PKcs, and XRCC4-DNA Ligase IV in an Extended Flexible Non-homologous End Joining Complex

(2016) Michal Hammel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Different DNA End Configurations Dictate Which NHEJ Components Are Most Important for Joining Efficiency

(2016) Howard H. Y. Chang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Gctf: Real-time CTF determination and correction

(2016) Kai Zhang   JOURNAL OF STRUCTURAL BIOLOGY

Two-Stage Synapsis of DNA Ends during Non-homologous End Joining

(2016) Thomas G.W. Graham et al.   MOLECULAR CELL

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

(2016) Dari Kimanius et al.   eLife

Unifying the DNA End-processing Roles of the Artemis Nuclease

(2015) Howard H. Y. Chang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

CTFFIND4: Fast and accurate defocus estimation from electron micrographs

(2015) Alexis Rohou et al.   JOURNAL OF STRUCTURAL BIOLOGY

mTOR kinase structure, mechanism and regulation

(2013) Haijuan Yang et al.   NATURE

Quantifying the local resolution of cryo-EM density maps

(2013) Alp Kucukelbir et al.   NATURE METHODS

XRCC4 and XLF form long helical protein filaments suitable for DNA end protection and alignment to facilitate DNA double strand break repair

(2012) Brandi L. Mahaney et al.   Biochemistry and Cell Biology

Role of non-homologous end joining in V(D)J recombination

(2012) Shruti Malu et al.   IMMUNOLOGIC RESEARCH

Prevention of overfitting in cryo-EM structure determination

(2012) Sjors H W Scheres et al.   NATURE METHODS

A human XRCC4–XLF complex bridges DNA

(2012) Sara N. Andres et al.   NUCLEIC ACIDS RESEARCH

Crystallization and preliminary X-ray diffraction analysis of the human XRCC4–XLF complex

(2011) Sara N. Andres et al.   Acta Crystallographica Section F-Structural Biology and Crystallization Communications

Live cell imaging of XLF and XRCC4 reveals a novel view of protein assembly in the non-homologous end-joining pathway

(2011) Ken-ichi Yano et al.   CELL CYCLE

XRCC4 Protein Interactions with XRCC4-like Factor (XLF) Create an Extended Grooved Scaffold for DNA Ligation and Double Strand Break Repair

(2011) Michal Hammel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural characterization of filaments formed by human Xrcc4-Cernunnos/XLF complex involved in nonhomologous DNA end-joining

(2011) V. Ropars et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Briefly Bound to Activate: Transient Binding of a Second Catalytic Magnesium Activates the Structure and Dynamics of CDK2 Kinase for Catalysis

(2011) Zhao Qin Bao et al.   STRUCTURE

Features and development ofCoot

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

Appion: An integrated, database-driven pipeline to facilitate EM image processing

(2009) Gabriel C. Lander et al.   JOURNAL OF STRUCTURAL BIOLOGY

DoG Picker and TiltPicker: Software tools to facilitate particle selection in single particle electron microscopy

(2009) N.R. Voss et al.   JOURNAL OF STRUCTURAL BIOLOGY

Structural and Functional Interaction between the Human DNA Repair Proteins DNA Ligase IV and XRCC4

(2009) P.-Y. Wu et al.   MOLECULAR AND CELLULAR BIOLOGY

DNA-PK and ATM phosphorylation sites in XLF/Cernunnos are not required for repair of DNA double strand breaks

(2008) Y YU et al.   DNA REPAIR

XLF-Cernunnos promotes DNA ligase IV–XRCC4 re-adenylation following ligation

(2008) Enriqueta Riballo et al.   NUCLEIC ACIDS RESEARCH