Affinage

AGFG1

Arf-GAP domain and FG repeat-containing protein 1 · UniProt P52594

Length
562 aa
Mass
58.3 kDa
Annotated
2026-06-09
100 papers in source corpus 2 papers cited in narrative 2 extracted findings
Cross-family judge vs UniProt: Affinage preferred faithfulness: 3/3 claims corpus-supported (100%)

Mechanistic narrative

Synthesis pass · prose summary of the discoveries below

AGFG1 (HRB) is a nucleocytoplasmic adaptor protein that links the clathrin-dependent endocytic machinery to nucleocytoplasmic transport (PMID:18819912, PMID:10613896). In the cytoplasm it colocalizes with clathrin-, AP-2-, EPS15-, and transferrin receptor-containing vesicles and binds the vesicular SNARE TI-VAMP (VAMP7); its depletion strongly reduces endocytosis of transferrin and TI-VAMP, establishing it as a required component of clathrin-dependent endocytosis (PMID:18819912). AGFG1 also associates with the EH-domain proteins Eps15 and Eps15R through its EH-binding motifs, an interaction that occurs in the cytoplasm and that synergizes with AGFG1 to enhance Rev-mediated nuclear export (PMID:10613896). Beyond these endocytic and Rev-export roles, no further mechanistic detail has been characterized in the available corpus.

Mechanistic history

Synthesis pass · year-by-year structured walk · 2 steps
  1. 1999 Medium

    Established that AGFG1 physically connects to the endocytic machinery and that this connection has functional consequences for nucleocytoplasmic export, addressing how an endocytic adaptor could influence Rev function.

    Evidence Co-immunoprecipitation mapping EH-binding motifs to Eps15/Eps15R, with functional Rev nuclear export assays

    PMID:10613896

    Open questions at the time
    • Interaction domain requirement established but without orthogonal structural validation
    • Mechanistic basis linking cytoplasmic Eps15 binding to nuclear Rev export not resolved
    • Stoichiometry and direct versus indirect nature of the synergy not defined
  2. 2008 High

    Defined AGFG1 as a required component of clathrin-dependent endocytosis by identifying its SNARE partner and demonstrating a loss-of-function cargo internalization defect.

    Evidence Yeast two-hybrid and biochemical pulldown with TI-VAMP (VAMP7), confocal colocalization with clathrin/AP-2/EPS15/transferrin receptor vesicles, and siRNA knockdown with FACS-based transferrin and pHLuorin-TI-VAMP endocytosis readouts in HeLa cells

    PMID:18819912

    Open questions at the time
    • Direct molecular mechanism by which AGFG1 promotes vesicle internalization not defined
    • Relationship between the endocytic role and the earlier Rev-export role left unintegrated
    • Functional significance of nuclear AGFG1 pool not addressed

Open questions

Synthesis pass · forward-looking unresolved questions
  • How AGFG1's dual cytoplasmic endocytic function and its contribution to nucleocytoplasmic transport are mechanistically unified remains unresolved.
  • No structural model of AGFG1 in complex with its partners
  • Regulation of AGFG1 partitioning between nucleus and cytoplasm uncharacterized
  • No substrate or post-translational regulation defined in the available corpus

Mechanism profile

Synthesis pass · controlled-vocabulary classification · explore literature graph →
Molecular activity
GO:0060090 molecular adaptor activity 2
Localization
GO:0005829 cytosol 2 GO:0005634 nucleus 1 GO:0031410 cytoplasmic vesicle 1
Pathway
R-HSA-5653656 Vesicle-mediated transport 1
Partners

Evidence

Reading pass · 2 per-paper findings extracted from the source corpus
Year Finding Method Journal Conf PMIDs
2008 HRB (AGFG1) was identified as a binding partner of the vesicular SNARE TI-VAMP (VAMP7) by yeast two-hybrid screening and confirmed by biochemical assays. In HeLa cells, HRB localized to the nucleus and cytoplasm, with cytoplasmic HRB colocalizing with clathrin-, AP-2-, EPS15-, and transferrin receptor-containing vesicles. Knockdown of HRB strongly reduced endocytosis of fluorescent transferrin and pHLuorin-TI-VAMP as measured by FACS, establishing HRB as a required component of clathrin-dependent endocytosis. Yeast two-hybrid, biochemical pulldown, fluorescence confocal microscopy (colocalization), siRNA knockdown + FACS-based endocytosis assay The Journal of biological chemistry High 18819912
1999 HRB (AGFG1) interacts with the EH (Eps15 homology) domain-containing proteins Eps15 and Eps15R via its EH-binding motifs, and this interaction occurs in the cytoplasm. Eps15 and Eps15R synergize with HRB to enhance Rev-mediated nuclear export function, and the EH-mediated Eps15–HRB interaction is required for this synergistic effect, connecting the endocytic molecular machinery to nucleocytoplasmic transport. Co-immunoprecipitation, cytoplasmic interaction localization, functional Rev export assays The Journal of cell biology Medium 10613896

Source papers

Stage 0 corpus · 100 papers · ranked by NIH iCite citations
Year Title Journal Citations PMID
2011 Role of Rab GTPases in membrane traffic and cell physiology. Physiological reviews 1254 21248164
2014 Rab proteins and the compartmentalization of the endosomal system. Cold Spring Harbor perspectives in biology 455 25341920
2001 Rab GTPases: specifying and deciphering organelle identity and function. Trends in cell biology 447 11719054
2002 Rab GTPases, intracellular traffic and disease. Trends in molecular medicine 393 11796263
2004 Targeting Rab GTPases to distinct membrane compartments. Nature reviews. Molecular cell biology 385 15520808
2000 Rab GTPases coordinate endocytosis. Journal of cell science 357 10633070
2010 Rab GEFs and GAPs. Current opinion in cell biology 351 20466531
2014 Regulation of autophagy by the Rab GTPase network. Cell death and differentiation 345 24440914
2015 Cellular functions of Rab GTPases at a glance. Journal of cell science 339 26272922
2018 Rab GTPase Function in Endosome and Lysosome Biogenesis. Trends in cell biology 315 30025982
2013 Rab GTPase regulation of membrane identity. Current opinion in cell biology 277 23639309
2007 Thirty-one flavors of Drosophila rab proteins. Genetics 258 17409086
2017 Rab GTPases: master regulators that establish the secretory and endocytic pathways. Molecular biology of the cell 235 28292916
2014 Rab proteins: the key regulators of intracellular vesicle transport. Experimental cell research 218 25088255
2011 DENN domain proteins: regulators of Rab GTPases. The Journal of biological chemistry 205 21330364
2005 Emerging role of RAB GTPases in cancer and human disease. Cancer research 183 15805241
2006 Thematic review series: lipid posttranslational modifications. geranylgeranylation of Rab GTPases. Journal of lipid research 180 16401880
2007 Manipulation of rab GTPase function by intracellular bacterial pathogens. Microbiology and molecular biology reviews : MMBR 166 18063721
2015 Rab family of GTPases. Methods in molecular biology (Clifton, N.J.) 158 25800828
2011 TBC proteins: GAPs for mammalian small GTPase Rab? Bioscience reports 156 21250943
2004 Rab GTPases and myosin motors in organelle motility. Traffic (Copenhagen, Denmark) 152 15117313
2001 Prenylation of Rab GTPases: molecular mechanisms and involvement in genetic disease. FEBS letters 149 11412856
2016 Rab-mediated vesicle trafficking in cancer. Journal of biomedical science 142 27716280
2018 Endosomal Rab cycles regulate Parkin-mediated mitophagy. eLife 141 29360040
2002 Rab coupling protein (RCP), a novel Rab4 and Rab11 effector protein. The Journal of biological chemistry 141 11786538
2006 Regulation of synaptic transmission by RAB-3 and RAB-27 in Caenorhabditis elegans. Molecular biology of the cell 137 16571673
2000 Rab geranylgeranyl transferase alpha mutation in the gunmetal mouse reduces Rab prenylation and platelet synthesis. Proceedings of the National Academy of Sciences of the United States of America 131 10737774
2009 Emerging roles for Rab family GTPases in human cancer. Biochimica et biophysica acta 122 19425190
2008 Rab GTPases and their roles in brain neurons and glia. Brain research reviews 120 18485483
2017 Rab GTPases and their interacting protein partners: Structural insights into Rab functional diversity. Small GTPases 118 28632484
2005 The structural and mechanistic basis for recycling of Rab proteins between membrane compartments. Cellular and molecular life sciences : CMLS 118 15924270
1990 Gene sequence, developmental expression, and protein phosphorylation of RAB-17 in maize. Plant molecular biology 115 2151715
2003 Rab proteins and endocytic trafficking: potential targets for therapeutic intervention. Advanced drug delivery reviews 114 14597139
2011 Rab GTPases as regulators of endocytosis, targets of disease and therapeutic opportunities. Clinical genetics 111 21651512
2019 PPM1H phosphatase counteracts LRRK2 signaling by selectively dephosphorylating Rab proteins. eLife 100 31663853
2015 Identification of an oncogenic RAB protein. Science (New York, N.Y.) 100 26338797
2012 Deregulation of Rab and Rab effector genes in bladder cancer. PloS one 100 22724020
2012 Are Rab proteins the link between Golgi organization and membrane trafficking? Cellular and molecular life sciences : CMLS 93 22581368
2000 Crystal structures of a Rab protein in its inactive and active conformations. Journal of molecular biology 93 11099382
2011 Rab GTPases and microtubule motors. Biochemical Society transactions 91 21936789
2001 Organization of the Rab-GDI/CHM superfamily: the functional basis for choroideremia disease. Traffic (Copenhagen, Denmark) 88 11489211
2000 Multiple aspects of Rab protein action in the secretory pathway: focus on Rab3 and Rab6. Biochimie 88 10865125
2014 Plant vacuolar trafficking driven by RAB and SNARE proteins. Current opinion in plant biology 87 25460076
2008 The functions of Rab GTPases in plant membrane traffic. Current opinion in plant biology 85 18952493
2019 Rab regulation by GEFs and GAPs during membrane traffic. Current opinion in cell biology 83 30981180
2008 Rab proteins and Rab-associated proteins: major actors in the mechanism of protein-trafficking disorders. European journal of pediatrics 81 18463892
2019 Rab GTPases: Switching to Human Diseases. Cells 80 31426400
2001 Increased myocardial Rab GTPase expression: a consequence and cause of cardiomyopathy. Circulation research 80 11739277
2016 Regulation of membrane traffic by Rab GEF and GAP cascades. Small GTPases 70 27427966
2012 Bacterial pathogens commandeer Rab GTPases to establish intracellular niches. Traffic (Copenhagen, Denmark) 70 22901006
2017 Viral interactions with host cell Rab GTPases. Small GTPases 69 28696820
2015 RAB-10 Regulates Dendritic Branching by Balancing Dendritic Transport. PLoS genetics 69 26633194
2012 Role of Rab family GTPases and their effectors in melanosomal logistics. Journal of biochemistry 67 22323658
2017 Rab GTPases in cilium formation and function. Small GTPases 65 29072526
2020 A conserved and regulated mechanism drives endosomal Rab transition. eLife 64 32391792
2018 Rab 10-a traffic controller in multiple cellular pathways and locations. Journal of cellular physiology 64 29377137
2005 Targeting of Rab GTPases to cellular membranes. Biochemical Society transactions 61 16042566
2014 Rab-mediated trafficking role in neurite formation. Journal of neurochemistry 59 24517494
2020 The Emerging Functions of LRRK2 and Rab GTPases in the Endolysosomal System. Frontiers in neuroscience 56 32256311
2008 Role of HRB in clathrin-dependent endocytosis. The Journal of biological chemistry 56 18819912
2017 Critical importance of RAB proteins for synaptic function. Small GTPases 54 28146371
2016 Rab GTPase signaling in neurite outgrowth and axon specification. Cytoskeleton (Hoboken, N.J.) 54 27124121
2016 Multivalent Rab interactions determine tether-mediated membrane fusion. Molecular biology of the cell 54 27852901
2017 Taking control: Hijacking of Rab GTPases by intracellular bacterial pathogens. Small GTPases 53 28632996
2017 Consequences of Rab GTPase dysfunction in genetic or acquired human diseases. Small GTPases 53 29239692
1997 Mycobacterial phagosome maturation, rab proteins, and intracellular trafficking. Electrophoresis 52 9527483
2022 LRRK2 phosphorylation of Rab GTPases in Parkinson's disease. FEBS letters 50 36114007
1996 Nucleotide dependence of Rab geranylgeranylation. Rab escort protein interacts preferentially with GDP-bound Rab. The Journal of biological chemistry 46 8662963
2017 Post translational modifications of Rab GTPases. Small GTPases 44 28426288
2024 Targeting Ras-, Rho-, and Rab-family GTPases via a conserved cryptic pocket. Cell 43 39255801
2017 The RAB GTPase RAB18 modulates macroautophagy and proteostasis. Biochemical and biophysical research communications 43 28342870
2008 The role of Rab GTPases in cell wall metabolism. Journal of experimental botany 43 18945942
1999 The eps15 homology (EH) domain-based interaction between eps15 and hrb connects the molecular machinery of endocytosis to that of nucleocytosolic transport. The Journal of cell biology 43 10613896
2012 Immune regulation of Rab proteins expression and intracellular transport. Journal of leukocyte biology 42 22496357
2004 Rab coupling protein associates with phagosomes and regulates recycling from the phagosomal compartment. Traffic (Copenhagen, Denmark) 42 15355514
2019 The role of Rab GTPases in the pathobiology of Parkinson' disease. Current opinion in cell biology 41 31054512
2011 Rab GTPases, membrane trafficking and diseases. Current drug targets 41 21561417
2009 A Rab escort protein integrates the secretion system with TOR signaling and ribosome biogenesis. Genes & development 41 19684114
2018 LRRK2 and Rab GTPases. Biochemical Society transactions 39 30467121
2015 How Rab proteins determine Golgi structure. International review of cell and molecular biology 38 25708460
2019 Multitasking Rab Proteins in Autophagy and Membrane Trafficking: A Focus on Rab33b. International journal of molecular sciences 37 31408960
2008 Comparative genomics of the Rab protein family in Apicomplexan parasites. Microbes and infection 37 18468471
1997 Rab proteins and post-Golgi trafficking of rhodopsin in photoreceptor cells. Electrophoresis 36 9527482
2022 Directing LRRK2 to membranes of the endolysosomal pathway triggers RAB phosphorylation and JIP4 recruitment. Neurobiology of disease 35 35580815
2012 Rab GTPases regulating receptor trafficking at the late endosome-lysosome membranes. Cell biochemistry and function 35 22473705
2017 Coordination of AMPA receptor trafficking by Rab GTPases. Small GTPases 33 28628388
2019 Rab GTPases as Physiological Substrates of LRRK2 Kinase. Experimental neurobiology 32 31138985
2012 Rab GTPase localization and Rab cascades in Golgi transport. Biochemical Society transactions 32 23176483
2010 Conservation and function of Rab small GTPases in Entamoeba: annotation of E. invadens Rab and its use for the understanding of Entamoeba biology. Experimental parasitology 31 20434444
2020 Phosphorylation of Rab GTPases in the regulation of membrane trafficking. Traffic (Copenhagen, Denmark) 30 32969543
2019 Coordination between Rac1 and Rab Proteins: Functional Implications in Health and Disease. Cells 29 31035701
2014 Targeting eukaryotic Rab proteins: a smart strategy for chlamydial survival and replication. Cellular microbiology 29 24948448
2019 HIV-1 infection increases microRNAs that inhibit Dicer1, HRB and HIV-EP2, thereby reducing viral replication. PloS one 28 30682089
2019 Cytoplasmic control of Rab family small GTPases through BAG6. EMBO reports 28 30804014
2019 Regulation of VEGFR2 trafficking and signaling by Rab GTPase-activating proteins. Scientific reports 28 31527750
2018 Role of Rab GTPases in Alzheimer's Disease. ACS chemical neuroscience 27 30261139
2015 Role of Rab GTPases and their interacting proteins in mediating metabolic signalling and regulation. Cellular and molecular life sciences : CMLS 27 25690707
2021 When Rab GTPases meet innate immune signaling pathways. Cytokine & growth factor reviews 26 33608190
2019 YIPF2 is a novel Rab-GDF that enhances HCC malignant phenotypes by facilitating CD147 endocytic recycle. Cell death & disease 26 31189879
2019 Ypt/Rab GTPases and their TRAPP GEFs at the Golgi. FEBS letters 26 31400292

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