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AlphaFold2-multimer guided high-accuracy prediction of typical and atypical ATG8-binding motifs
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/pro.3186openalex-snapshot
Insights into links between autophagy and the ubiquitin system from the structure of LC3B bound to the LIR motif from the E3 ligase NEDD4
inferredcites →https://doi.org/10.1007/978-3-642-00302-8_1openalex-snapshot
An Overview of the Molecular Mechanism of Autophagy
inferredcites →https://doi.org/10.1016/j.cell.2013.12.022openalex-snapshot
Molecular Mechanism of Autophagic Membrane-Scaffold Assembly and Disassembly
inferredcites →https://doi.org/10.1016/j.chom.2014.01.006openalex-snapshot
A LC3-Interacting Motif in the Influenza A Virus M2 Protein Is Required to Subvert Autophagy and Maintain Virion Stability
inferredcites →https://doi.org/10.1016/j.cub.2018.02.034openalex-snapshot
Coordination of Autophagosome–Lysosome Fusion by Atg8 Family Members
inferredcites →https://doi.org/10.1016/j.jmb.2019.07.016openalex-snapshot
Selective Autophagy: ATG8 Family Proteins, LIR Motifs and Cargo Receptors
inferredcites →https://doi.org/10.1016/j.jmb.2021.166987openalex-snapshot
Phosphorylation of the LIR Domain of SCOC Modulates ATG8 Binding Affinity and Specificity
inferredcites →https://doi.org/10.1016/j.jsb.2012.09.001openalex-snapshot
Structural characterization and inhibition of the Plasmodium Atg8–Atg3 interaction
inferredcites →https://doi.org/10.1016/j.molcel.2011.08.034openalex-snapshot
Atg8 Transfer from Atg7 to Atg3: A Distinctive E1-E2 Architecture and Mechanism in the Autophagy Pathway
inferredcites →https://doi.org/10.1016/j.molcel.2012.08.024openalex-snapshot
LC3C, Bound Selectively by a Noncanonical LIR Motif in NDP52, Is Required for Antibacterial Autophagy
inferredcites →https://doi.org/10.1016/j.molcel.2014.11.006openalex-snapshot
PLEKHM1 Regulates Autophagosome-Lysosome Fusion through HOPS Complex and LC3/GABARAP Proteins
inferredcites →https://doi.org/10.1016/j.molcel.2020.10.030openalex-snapshot
A Selective Autophagy Pathway for Phase-Separated Endocytic Protein Deposits
inferredcites →https://doi.org/10.1016/j.tplants.2016.11.015openalex-snapshot
ATG8 Expansion: A Driver of Selective Autophagy Diversification?
inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot
Basic Local Alignment Search Tool
inferredcites →https://doi.org/10.1038/msb.2011.75openalex-snapshot
Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega
inferredcites →https://doi.org/10.1038/ncb2082openalex-snapshot
Autophagy negatively regulates Wnt signalling by promoting Dishevelled degradation
inferredcites →https://doi.org/10.1038/ncb2979openalex-snapshot
Cargo recognition and trafficking in selective autophagy
inferredcites →https://doi.org/10.1038/nmeth.2019openalex-snapshot
Fiji: an open-source platform for biological-image analysis
inferredcites →https://doi.org/10.1038/s41467-019-10059-6openalex-snapshot
Molecular determinants regulating selective binding of autophagy adapters and receptors to ATG8 proteins
inferredcites →https://doi.org/10.1038/s41467-020-17163-yopenalex-snapshot
Super-assembly of ER-phagy receptor Atg40 induces local ER remodeling at contacts with forming autophagosomal membranes
inferredcites →https://doi.org/10.1038/s41467-021-23539-5openalex-snapshot
Model-based analysis uncovers mutations altering autophagy selectivity in human cancer
inferredcites →https://doi.org/10.1038/s41564-017-0054-xopenalex-snapshot
Plasmodium UIS3 sequesters host LC3 to avoid elimination by autophagy in hepatocytes
inferredcites →https://doi.org/10.1038/s41586-021-03819-2openalex-snapshot
Highly accurate protein structure prediction with AlphaFold
inferredcites →https://doi.org/10.1038/s41592-022-01488-1openalex-snapshot
ColabFold: making protein folding accessible to all
inferredcites →https://doi.org/10.1042/bcj20180748openalex-snapshot
The transmembrane autophagy cargo receptors ATI1 and ATI2 interact with ATG8 through intrinsically disordered regions with distinct biophysical properties
inferredcites →https://doi.org/10.1073/pnas.1112708109openalex-snapshot
Phytophthora infestans effector AVRblb2 prevents secretion of a plant immune protease at the haustorial interface
inferredcites →https://doi.org/10.1074/jbc.c112.387514openalex-snapshot
The Autophagy-related Protein Kinase Atg1 Interacts with the Ubiquitin-like Protein Atg8 via the Atg8 Family Interacting Motif to Facilitate Autophagosome Formation
inferredcites →https://doi.org/10.1074/jbc.m109753200openalex-snapshot
The X-ray Crystal Structure and Putative Ligand-derived Peptide Binding Properties of γ-Aminobutyric Acid Receptor Type A Receptor-associated Protein
inferredcites →https://doi.org/10.1074/jbc.m116.744995openalex-snapshot
Structural Basis of Host Autophagy-related Protein 8 (ATG8) Binding by the Irish Potato Famine Pathogen Effector Protein PexRD54
inferredcites →https://doi.org/10.1080/15548627.2015.1111503openalex-snapshot
Analysis of the native conformation of the LIR/AIM motif in the Atg8/LC3/GABARAP-binding proteins
inferredcites →https://doi.org/10.1080/15548627.2016.1147668openalex-snapshot
hfAIM: A reliable bioinformatics approach for in silico genome-wide identification of autophagy-associated Atg8-interacting motifs in various organisms
inferredcites →https://doi.org/10.1080/15548627.2016.1268301openalex-snapshot
The E3 ubiquitin ligase NEDD4 is an LC3-interactive protein and regulates autophagy
inferredcites →https://doi.org/10.1080/15548627.2016.1277311openalex-snapshot
Beyond Atg8 binding: The role of AIM/LIR motifs in autophagy
inferredcites →https://doi.org/10.1080/15548627.2019.1596479openalex-snapshot
Autophagy-dependent secretion: mechanism, factors secreted, and disease implications
inferredcites →https://doi.org/10.1080/15548627.2023.2235851openalex-snapshot
LIRcentral: a manually curated online database of experimentally validated functional LIR motifs
inferredcites →https://doi.org/10.1083/jcb.200907015openalex-snapshot
FYCO1 is a Rab7 effector that binds to LC3 and PI3P to mediate microtubule plus end–directed vesicle transport
inferredcites →https://doi.org/10.1083/jcb.202108120openalex-snapshot
ATG8ylation of proteins: A way to cope with cell stress?
inferredcites →https://doi.org/10.1089/ars.2013.5371openalex-snapshot
An Overview of Autophagy: Morphology, Mechanism, and Regulation
inferredcites →https://doi.org/10.1093/bioinformatics/btt473openalex-snapshot
lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests
inferredcites →https://doi.org/10.1101/2021.10.04.463034openalex-snapshot
Protein complex prediction with AlphaFold-Multimer
inferredcites →https://doi.org/10.1101/2022.04.26.489478openalex-snapshot
Shuffled ATG8 interacting motifs form an ancestral bridge between UFMylation and C53-mediated autophagy
inferredcites →https://doi.org/10.1101/2022.08.02.502437openalex-snapshot
Human ATG3 contains a non-canonical LIR motif crucial for its enzymatic activity in autophagy
inferredcites →https://doi.org/10.1105/tpc.114.129999openalex-snapshot
Arabidopsis ATG8-INTERACTING PROTEIN1 Is Involved in Autophagy-Dependent Vesicular Trafficking of Plastid Proteins to the Vacuole
inferredcites →https://doi.org/10.1111/febs.13540openalex-snapshot
p62/ SQSTM 1 functions as a signaling hub and an autophagy adaptor
inferredcites →https://doi.org/10.1111/j.1365-2443.2007.01050.xopenalex-snapshot
Hierarchy of Atg proteins in pre‐autophagosomal structure organization
inferredcites →https://doi.org/10.1111/j.1365-313x.2005.02545.xopenalex-snapshot
Arabidopsis thaliana subcellular responses to compatible Erysiphe cichoracearum infections
inferredcites →https://doi.org/10.1111/j.1742-4658.2008.06857.xopenalex-snapshot
Structural framework of the GABARAP–calreticulin interface – implications for substrate binding to endoplasmic reticulum chaperones
inferredcites →https://doi.org/10.1186/gb-2011-12-7-226openalex-snapshot
Atg8: an autophagy-related ubiquitin-like protein family
inferredcites →https://doi.org/10.1371/journal.pone.0017886openalex-snapshot
X-Ray Structure of the Human Calreticulin Globular Domain Reveals a Peptide-Binding Area and Suggests a Multi-Molecular Mechanism
inferredcites →https://doi.org/10.1371/journal.ppat.1005433openalex-snapshot
Correction: The Autophagy Receptor TAX1BP1 and the Molecular Motor Myosin VI Are Required for Clearance of Salmonella Typhimurium by Autophagy
inferredcites →https://doi.org/10.15698/cst2021.09.255openalex-snapshot
Atg8ylation as a general membrane stress and remodeling response
inferredcites →https://doi.org/10.3389/fcell.2021.685625openalex-snapshot
Binding Features and Functions of ATG3
inferredcites →https://doi.org/10.3390/cells9092008openalex-snapshot
Atg8-Family Proteins—Structural Features and Molecular Interactions in Autophagy and Beyond
inferredcites →https://doi.org/10.4161/15548627.2014.984267openalex-snapshot
Posttranslational modification of autophagy-related proteins in macroautophagy
inferredcites →https://doi.org/10.4161/psb.28523openalex-snapshot
Selective autophagy receptor Joka2 co-localizes with cytoskeleton in plant cells
inferredcites →https://doi.org/10.5483/bmbrep.2019.52.12.211openalex-snapshot
LIR motifs and the membrane-targeting domain are complementary in the function of RavZ
inferredcites →https://doi.org/10.7554/elife.10856openalex-snapshot
An effector of the Irish potato famine pathogen antagonizes a host autophagy cargo receptor
inferredcites →https://doi.org/10.7554/elife.18544openalex-snapshot
Mechanism of cargo-directed Atg8 conjugation during selective autophagy
inferredcites →https://doi.org/10.7554/elife.25555openalex-snapshot
Full length RTN3 regulates turnover of tubular endoplasmic reticulum via selective autophagy
inferredcites →https://doi.org/10.7554/elife.58396openalex-snapshot
A cross-kingdom conserved ER-phagy receptor maintains endoplasmic reticulum homeostasis during stress
inferredcites →https://doi.org/10.7554/elife.65285openalex-snapshot
An oomycete effector subverts host vesicle trafficking to channel starvation-induced autophagy to the pathogen interface
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.5281/zenodo.13709932zenodo-depositor-declared
AIMapper: discovery of novel ATG8 targets in plant autophagy-pathogen interactions via a custom AlphaFold-Multimer pipeline
inferred← citeshttps://doi.org/10.1002/1873-3468.14997openalex-snapshot
GABARAP interacts with EGFR — supporting the unique role of this hAtg8 protein during receptor trafficking
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Transferrin receptor 1‐mediated iron uptake supports thermogenic activation in human cervical‐derived adipocytes
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Identification of potential selective autophagy receptors from protein‐content profiling of autophagosomes
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Peptidomimetics design and characterization: Bridging experimental and computer-based approaches
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The receptor binding mechanism of mouse sPLA2 group IIE
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Family-wide analysis of integrin structures predicted by AlphaFold2
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Inhibitory effect of truncated isoforms on GPCR dimerization predicted by combinatorial computational strategy
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A RabGAP negatively regulates plant autophagy and immune trafficking
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Deciphering the rules of regulated cell death subroutines by in silico methods
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The ribonuclease RNase T2 mediates selective autophagy of ribosomes induced by starvation in Saccharomyces cerevisiae
inferred← citeshttps://doi.org/10.1016/j.jconrel.2026.114890openalex-snapshot
AI-validated fusion proteins for local inhibition of interleukin-17A
inferred← citeshttps://doi.org/10.1016/j.jmb.2024.168574openalex-snapshot
Selective Autophagy of Macromolecular Complexes: What Does It Take to be Taken?
inferred← citeshttps://doi.org/10.1016/j.scib.2023.07.030openalex-snapshot
Intercellular mitochondrial component transfer triggers ischemic cardiac fibrosis
inferred← citeshttps://doi.org/10.1016/j.tplants.2023.05.008openalex-snapshot
How to convert host plants into nonhosts
inferred← citeshttps://doi.org/10.1021/acscentsci.3c00009openalex-snapshot
Semisynthetic LC3 Probes for Autophagy Pathways Reveal a Noncanonical LC3 Interacting Region Motif Crucial for the Enzymatic Activity of Human ATG3
inferred← citeshttps://doi.org/10.1038/s41467-023-41721-9openalex-snapshot
AlphaFold-Multimer predicts cross-kingdom interactions at the plant-pathogen interface
inferred← citeshttps://doi.org/10.1038/s41467-024-51451-1openalex-snapshot
Structural insights into Frizzled3 through nanobody modulators
inferred← citeshttps://doi.org/10.1038/s41467-026-71237-xopenalex-snapshot
Nucleophagy is promoted by two autophagy receptors and inhibited by chromatin-nuclear envelope tethering in fission yeast
inferred← citeshttps://doi.org/10.1038/s41467-026-73116-xopenalex-snapshot
A dual phospholipase system instructs membrane hydrolysis during the final stages of plant autophagy
inferred← citeshttps://doi.org/10.1038/s41579-025-01248-wopenalex-snapshot
Oomycete plant pathogens: biology, pathogenesis and emerging control strategies
inferred← citeshttps://doi.org/10.1038/s42003-025-08399-9openalex-snapshot
Decoding phospho-regulation and flanking regions in autophagy-associated short linear motifs
inferred← citeshttps://doi.org/10.1042/bsr20240038openalex-snapshot
New insights into GATOR2-dependent interactions and its conformational changes in amino acid sensing
inferred← citeshttps://doi.org/10.1042/ebc20253039openalex-snapshot
Non-covalent SUMO interactions with ligases and effectors: SUMO-interacting motifs and beyond
inferred← citeshttps://doi.org/10.1073/pnas.2425689122openalex-snapshot
Biomolecular condensation of ERC1 recruits ATG8 and NBR1 to drive autophagosome formation for plant heat tolerance
inferred← citeshttps://doi.org/10.1080/15548627.2024.2447213openalex-snapshot
Structure of the human autophagy factor EPG5 and the molecular basis of its conserved mode of interaction with Atg8-family proteins
inferred← citeshttps://doi.org/10.1080/15548627.2025.2493999openalex-snapshot
AlphaFold2 SLiM screen for LC3-LIR interactions in autophagy
inferred← citeshttps://doi.org/10.1080/27694127.2023.2188523openalex-snapshot
Atg8 family proteins, LIR/AIM motifs and other interaction modes
inferred← citeshttps://doi.org/10.1083/jcb.202504076openalex-snapshot
The rapidly expanding role of LC3-interacting regions in autophagy
inferred← citeshttps://doi.org/10.1093/jxb/erae088openalex-snapshot
Unlocking protein–protein interactions in plants: a comprehensive review of established and emerging techniques
inferred← citeshttps://doi.org/10.1093/plphys/kiad471openalex-snapshot
CALEOSIN 1 interaction with AUTOPHAGY-RELATED PROTEIN 8 facilitates lipid droplet microautophagy in seedlings
inferred← citeshttps://doi.org/10.1094/mpmi-09-24-0115-fiopenalex-snapshot
From Lesions to Lessons: Two Decades of Filamentous Plant Pathogen Genomics
inferred← citeshttps://doi.org/10.1098/rsob.250446openalex-snapshot
Autophagy in the arms race: how pathogen effectors rewire immunity in plants
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A genomic and structural bioinformatic pipeline identifies candidate type VI secretion antibacterial effector-immunity pairs
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A RabGAP-Rab GTPase pair regulates plant autophagy and immunity
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Exploring Leishmania linear motifs directing protein secretion, sorting and autophagy
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Decoding Phospho-Regulation and Flanking Regions in Autophagy-Associated Short Linear Motifs: A Case Study of Optineurin-LC3B Interaction
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EGFR meets hATG8s – Biophysical and structural insights supporting a unique role of GABARAP during receptor trafficking
inferred← citeshttps://doi.org/10.1101/2024.09.06.611604openalex-snapshot
AlphaFold2 SLiM screen for LC3-LIR interactions in autophagy
inferred← citeshttps://doi.org/10.1101/2024.11.24.625045openalex-snapshot
Can AI Modelling of Protein Structures Distinguish Between Sensor and Helper NLR Immune Receptors?
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The graphene-based affinity cryo-EM grid for the endogenous protein structure determination
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Voltage-dependent anion channels are mitophagy receptors mediating the recycling of depolarized mitochondria in Arabidopsis
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A dual component system instructs membrane hydrolysis during the final stages of plant autophagy
inferred← citeshttps://doi.org/10.1111/nph.70391openalex-snapshot
Can AI modeling of protein structures distinguish between sensor and helper NLR immune receptors?
inferred← citeshttps://doi.org/10.1111/nph.71172openalex-snapshot
PWO proteins are associated with PRC2 since their emergence in vascular plants
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The transformative power of structural predictions with AI in plant science
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Diversification and deployment of PRR and NLR immune receptors in potato
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Aphid effectors suppress plant immunity via recruiting defense proteins to processing bodies
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Integrating Large-Scale Protein Structure Prediction into Human Genetics Research
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Host cellular protein RAB33B facilitates influenza viral replication and modulates M2 trafficking by enhancing autophagy
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AlphaFold-multimer predicts ATG8 protein binding motifs crucial for autophagy research
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The future is bright, the future is biotechnology
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Linear motifs regulating protein secretion, sorting and autophagy in Leishmania parasites are diverged with respect to their host equivalents
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A predicted structural interactome reveals binding interference from intrinsically disordered regions
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Two folds, many faces: The Magnaporthe oryzae MAX effector AVR-Pia targets novel rice HMA domain-containing proteins
inferred← citeshttps://doi.org/10.21203/rs.3.rs-3930616/v1openalex-snapshot
Dynamic protein-protein interactions of the potato autophagy-related StATG8 family proteins, which are also associated with WRKY transcription factor and pathogen effector in the nucleus
inferred← citeshttps://doi.org/10.3389/fmolb.2024.1414916openalex-snapshot
AlphaFold2 in biomedical research: facilitating the development of diagnostic strategies for disease
inferred← citeshttps://doi.org/10.3389/fmolb.2025.1531793openalex-snapshot
Successful prediction of LC8 binding to intrinsically disordered proteins sheds light on AlphaFold’s black box
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The transformative impact of AI-enabled AlphaFold 3: evolution, current status, and future prospects in structural biology
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Definition and Discovery of Tandem SH3-Binding Motifs Interacting with Members of the p47phox-Related Protein Family
inferred← citeshttps://doi.org/10.3390/cells14020121openalex-snapshot
Discovery of Evolutionary Loss of the Ubiquitin-like Autophagy-Related ATG12 System in a Lineage of Apicomplexa
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Dynamic Dimerization of Chemokine Receptors and Potential Inhibitory Role of Their Truncated Isoforms Revealed through Combinatorial Prediction
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Interaction of Potato Autophagy-Related StATG8 Family Proteins with Pathogen Effector and WRKY Transcription Factor in the Nucleus
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UniWave: A Waveform-Based Encoding Framework for Nucleic Acid Feature Extraction
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NLR immune receptors can exhibit tissue-specific expression patterns across legume species
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Molecular Modulators and Receptors of Selective Autophagy: Disease Implication and Identification Strategies
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