TBK1‐mediated phosphorylation of LC3C and GABARAP‐L2 controls autophagosome shedding by ATG4 protease

Distinct functions of ATG16L1 isoforms in membrane binding and LC3B lipidation in autophagy-related processes

(2019) Alf Håkon Lystad et al.   NATURE CELL BIOLOGY

Spatiotemporal Control of ULK1 Activation by NDP52 and TBK1 during Selective Autophagy

(2019) Jose Norberto S. Vargas et al.   MOLECULAR CELL

The Cargo Receptor NDP52 Initiates Selective Autophagy by Recruiting the ULK Complex to Cytosol-Invading Bacteria

(2019) Benjamin J. Ravenhill et al.   MOLECULAR CELL

Mechanisms and Pathophysiological Roles of the ATG8 Conjugation Machinery

(2019) Lystad et al.   Cells

Aberrant regulation of autophagy in mammalian diseases

(2018) Wei Xie et al.   Biology Letters

Autophagy-regulating protease Atg4: structure, function, regulation and inhibition

(2017) Tatsuro Maruyama et al.   JOURNAL OF ANTIBIOTICS

New insights into autophagosome–lysosome fusion

(2017) Shuhei Nakamura et al.   JOURNAL OF CELL SCIENCE

Atg4 proteolytic activity can be inhibited by Atg1 phosphorylation

(2017) Jana Sánchez-Wandelmer et al.   Nature Communications

A reversible phospho-switch mediated by ULK1 regulates the activity of autophagy protease ATG4B

(2017) N. Pengo et al.   Nature Communications

Autophagy proteins are not universally required for phagosome maturation

(2016) Marija Cemma et al.   Autophagy

The 1:2 complex between RavZ and LC3 reveals a mechanism for deconjugation of LC3 on the phagophore membrane

(2016) Do Hoon Kwon et al.   Autophagy

Unraveling the roles of Atg4 proteases from autophagy modulation to targeted cancer therapy

(2016) Lan Zhang et al.   CANCER LETTERS

Atg8 family LC3/GABARAP proteins are crucial for autophagosome–lysosome fusion but not autophagosome formation during PINK1/Parkin mitophagy and starvation

(2016) Thanh Ngoc Nguyen et al.   JOURNAL OF CELL BIOLOGY

CHARMM36m: an improved force field for folded and intrinsically disordered proteins

(2016) Jing Huang et al.   NATURE METHODS

ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules

(2016) Haim Ashkenazy et al.   NUCLEIC ACIDS RESEARCH

Phosphorylation of OPTN by TBK1 enhances its binding to Ub chains and promotes selective autophagy of damaged mitochondria

(2016) Benjamin Richter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Expanding the ubiquitin code through post-translational modification

(2015) L. Herhaus et al.   EMBO REPORTS

ATG4B (Autophagin-1) Phosphorylation Modulates Autophagy

(2015) Zhifen Yang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

PLEKHM1 Regulates Autophagosome-Lysosome Fusion through HOPS Complex and LC3/GABARAP Proteins

(2015) David G. McEwan et al.   MOLECULAR CELL

The PINK1-PARKIN Mitochondrial Ubiquitylation Pathway Drives a Program of OPTN/NDP52 Recruitment and TBK1 Activation to Promote Mitophagy

(2015) Jin-Mi Heo et al.   MOLECULAR CELL

The ubiquitin kinase PINK1 recruits autophagy receptors to induce mitophagy

(2015) Michael Lazarou et al.   NATURE

Haploinsufficiency of TBK1 causes familial ALS and fronto-temporal dementia

(2015) Axel Freischmidt et al.   NATURE NEUROSCIENCE

Defining roles of PARKIN and ubiquitin phosphorylation by PINK1 in mitochondrial quality control using a ubiquitin replacement strategy

(2015) Alban Ordureau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

GABARAPs regulate PI4P-dependent autophagosome:lysosome fusion

(2015) Hanzhi Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Casein kinase 2 (CK2) phosphorylates the deubiquitylase OTUB1 at Ser16to trigger its nuclear localization

(2015) Lina Herhaus et al.   Science Signaling

Casein kinase 2 (CK2) phosphorylates the deubiquitylase OTUB1 at Ser16to trigger its nuclear localization

(2015) Lina Herhaus et al.   Science Signaling

Self and Nonself: How Autophagy Targets Mitochondria and Bacteria

(2014) Felix Randow et al.   Cell Host & Microbe

g_mmpbsa—A GROMACS Tool for High-Throughput MM-PBSA Calculations

(2014) Rashmi Kumari et al.   Journal of Chemical Information and Modeling

Cargo recognition and trafficking in selective autophagy

(2014) Alexandra Stolz et al.   NATURE CELL BIOLOGY

Optineurin is an autophagy receptor for damaged mitochondria in parkin-mediated mitophagy that is disrupted by an ALS-linked mutation

(2014) Yvette C. Wong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

USP15 targets ALK3/BMPR1A for deubiquitylation to enhance bone morphogenetic protein signalling

(2014) L. Herhaus et al.   Open Biology

GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit

(2013) Sander Pronk et al.   BIOINFORMATICS

Two ubiquitin-like conjugation systems that mediate membrane formation during autophagy

(2013) Hitoshi Nakatogawa   Essays in Biochemistry

Structural Insights into the Functions of TBK1 in Innate Antimicrobial Immunity

(2013) Chang Shu et al.   STRUCTURE

Structural Basis of the Autophagy-Related LC3/Atg13 LIR Complex: Recognition and Interaction Mechanism

(2013) Hironori Suzuki et al.   STRUCTURE

OTUB1 enhances TGFβ signalling by inhibiting the ubiquitylation and degradation of active SMAD2/3

(2013) Lina Herhaus et al.   Nature Communications

Dual roles of Atg8−PE deconjugation by Atg4 in autophagy

(2012) Zhong-Qiu Yu et al.   Autophagy

Atg4 recycles inappropriately lipidated Atg8 to promote autophagosome biogenesis

(2012) Hitoshi Nakatogawa et al.   Autophagy

TBK-1 Promotes Autophagy-Mediated Antimicrobial Defense by Controlling Autophagosome Maturation

(2012) Manohar Pilli et al.   IMMUNITY

Molecular basis of Tank-binding kinase 1 activation by transautophosphorylation

(2012) X. Ma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Legionella Effector RavZ Inhibits Host Autophagy Through Irreversible Atg8 Deconjugation

(2012) A. Choy et al.   SCIENCE

Serine 403 Phosphorylation of p62/SQSTM1 Regulates Selective Autophagic Clearance of Ubiquitinated Proteins

(2011) Gen Matsumoto et al.   MOLECULAR CELL

Phosphorylation of the Autophagy Receptor Optineurin Restricts Salmonella Growth

(2011) P. Wild et al.   SCIENCE

LC3 and GATE-16/GABARAP subfamilies are both essential yet act differently in autophagosome biogenesis

(2010) Hilla Weidberg et al.   EMBO JOURNAL

Kinetics Comparisons of Mammalian Atg4 Homologues Indicate Selective Preferences toward Diverse Atg8 Substrates

(2010) Min Li et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Eaten alive: a history of macroautophagy

(2010) Zhifen Yang et al.   NATURE CELL BIOLOGY

The structure of Atg4B–LC3 complex reveals the mechanism of LC3 processing and delipidation during autophagy

(2009) Kenji Satoo et al.   EMBO JOURNAL

The Adaptor Protein p62/SQSTM1 Targets Invading Bacteria to the Autophagy Pathway

(2009) Y. T. Zheng et al.   JOURNAL OF IMMUNOLOGY

The TBK1 adaptor and autophagy receptor NDP52 restricts the proliferation of ubiquitin-coated bacteria

(2009) Teresa L M Thurston et al.   NATURE IMMUNOLOGY

CHARMM-GUI: A web-based graphical user interface for CHARMM

(2008) Sunhwan Jo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY