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Dobner J, Simons IM, Rufinatscha K, Hänsch S, Schwarten M, Weiergräber OH, Abdollahzadeh I, Gensch T, Bode JG, Hoffmann S, Willbold D. Deficiency of GABARAP but not its Paralogs Causes Enhanced EGF-induced EGFR Degradation. Cells 2020; 9:E1296. [PMID: 32456010 PMCID: PMC7291022 DOI: 10.3390/cells9051296] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2020] [Revised: 05/19/2020] [Accepted: 05/20/2020] [Indexed: 12/20/2022] Open
Abstract
The γ-aminobutyric acid type A receptor-associated protein (GABARAP) and its close paralogs GABARAPL1 and GABARAPL2 constitute a subfamily of the autophagy-related 8 (Atg8) protein family. Being associated with a variety of dynamic membranous structures of autophagic and non-autophagic origin, Atg8 proteins functionalize membranes by either serving as docking sites for other proteins or by acting as membrane tethers or adhesion factors. In this study, we describe that deficiency for GABARAP alone, but not for its close paralogs, is sufficient for accelerated EGF receptor (EGFR) degradation in response to EGF, which is accompanied by the downregulation of EGFR-mediated MAPK signaling, altered target gene expression, EGF uptake, and EGF vesicle composition over time. We further show that GABARAP and EGFR converge in the same distinct compartments at endogenous GABARAP expression levels in response to EGF stimulation. Furthermore, GABARAP associates with EGFR in living cells and binds to synthetic peptides that are derived from the EGFR cytoplasmic tail in vitro. Thus, our data strongly indicate a unique and novel role for GABARAP during EGFR trafficking.
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Affiliation(s)
- Jochen Dobner
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany; (J.D.); (I.M.S.)
| | - Indra M. Simons
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany; (J.D.); (I.M.S.)
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, 52425 Jülich, Germany; (M.S.); (O.H.W.); (I.A.); (S.H.)
| | - Kerstin Rufinatscha
- Department of Gastroenterology, Hepatology and Infectiology, University Hospital, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany; (K.R.); (J.G.B.)
| | - Sebastian Hänsch
- Department of Biology, Center for Advanced Imaging (CAi), Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany;
| | - Melanie Schwarten
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, 52425 Jülich, Germany; (M.S.); (O.H.W.); (I.A.); (S.H.)
| | - Oliver H. Weiergräber
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, 52425 Jülich, Germany; (M.S.); (O.H.W.); (I.A.); (S.H.)
| | - Iman Abdollahzadeh
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, 52425 Jülich, Germany; (M.S.); (O.H.W.); (I.A.); (S.H.)
- Institute of Biological Information Processing: Molecular and Cell Physiology (IBI-1), Forschungszentrum Jülich, 52425 Jülich, Germany;
| | - Thomas Gensch
- Institute of Biological Information Processing: Molecular and Cell Physiology (IBI-1), Forschungszentrum Jülich, 52425 Jülich, Germany;
| | - Johannes G. Bode
- Department of Gastroenterology, Hepatology and Infectiology, University Hospital, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany; (K.R.); (J.G.B.)
| | - Silke Hoffmann
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, 52425 Jülich, Germany; (M.S.); (O.H.W.); (I.A.); (S.H.)
| | - Dieter Willbold
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany; (J.D.); (I.M.S.)
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, 52425 Jülich, Germany; (M.S.); (O.H.W.); (I.A.); (S.H.)
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Möckel C, Kubiak J, Schillinger O, Kühnemuth R, Della Corte D, Schröder GF, Willbold D, Strodel B, Seidel CAM, Neudecker P. Integrated NMR, Fluorescence, and Molecular Dynamics Benchmark Study of Protein Mechanics and Hydrodynamics. J Phys Chem B 2018; 123:1453-1480. [DOI: 10.1021/acs.jpcb.8b08903] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Christina Möckel
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
- Institute of Complex Systems (ICS-6: Structural Biochemistry), Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Jakub Kubiak
- Lehrstuhl für Molekulare Physikalische Chemie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
| | - Oliver Schillinger
- Institute of Complex Systems (ICS-6: Structural Biochemistry), Forschungszentrum Jülich, 52425 Jülich, Germany
- Institut für Theoretische Chemie und Computerchemie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
| | - Ralf Kühnemuth
- Lehrstuhl für Molekulare Physikalische Chemie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
| | - Dennis Della Corte
- Institute of Complex Systems (ICS-6: Structural Biochemistry), Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Gunnar F. Schröder
- Institute of Complex Systems (ICS-6: Structural Biochemistry), Forschungszentrum Jülich, 52425 Jülich, Germany
- Physics Department, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
| | - Dieter Willbold
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
- Institute of Complex Systems (ICS-6: Structural Biochemistry), Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Birgit Strodel
- Institute of Complex Systems (ICS-6: Structural Biochemistry), Forschungszentrum Jülich, 52425 Jülich, Germany
- Institut für Theoretische Chemie und Computerchemie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
| | - Claus A. M. Seidel
- Lehrstuhl für Molekulare Physikalische Chemie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
| | - Philipp Neudecker
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
- Institute of Complex Systems (ICS-6: Structural Biochemistry), Forschungszentrum Jülich, 52425 Jülich, Germany
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Weiergräber OH, Schwarten M, Strodel B, Willbold D. Investigating Structure and Dynamics of Atg8 Family Proteins. Methods Enzymol 2016; 587:115-142. [PMID: 28253952 DOI: 10.1016/bs.mie.2016.09.056] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Atg8 family members were the first autophagy-related proteins to be investigated in structural detail and continue to be among the best-understood molecules of the pathway. In this review, we will first provide a concise outline of the major methods that are being applied for structural characterization of these proteins and the complexes they are involved in. This includes a discussion of the strengths and limitations associated with each method, along with guidelines for successful adoption to a specific problem. Subsequently, we will present examples illustrating the application of these techniques, with a particular focus on the complementarity of information they provide.
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Affiliation(s)
- O H Weiergräber
- Institute of Complex Systems, ICS-6 (Structural Biochemistry), Forschungszentrum Jülich, Jülich, Germany
| | - M Schwarten
- Institute of Complex Systems, ICS-6 (Structural Biochemistry), Forschungszentrum Jülich, Jülich, Germany
| | - B Strodel
- Institute of Complex Systems, ICS-6 (Structural Biochemistry), Forschungszentrum Jülich, Jülich, Germany
| | - D Willbold
- Institute of Complex Systems, ICS-6 (Structural Biochemistry), Forschungszentrum Jülich, Jülich, Germany; Institut für Physikalische Biologie und BMFZ, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany.
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Kraft LJ, Kenworthy AK. Imaging protein complex formation in the autophagy pathway: analysis of the interaction of LC3 and Atg4B(C74A) in live cells using Förster resonance energy transfer and fluorescence recovery after photobleaching. JOURNAL OF BIOMEDICAL OPTICS 2012; 17:011008. [PMID: 22352642 PMCID: PMC3380812 DOI: 10.1117/1.jbo.17.1.011008] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2011] [Revised: 09/28/2011] [Accepted: 09/29/2011] [Indexed: 05/31/2023]
Abstract
The protein microtubule-associated protein 1, light chain 3 (LC3) functions in autophagosome formation and plays a central role in the autophagy pathway. Previously, we found LC3 diffuses more slowly in cells than is expected for a freely diffusing monomer, suggesting it may constitutively associate with a macromolecular complex containing other protein components of the pathway. In the current study, we used Förster resonance energy transfer (FRET) microscopy and fluorescence recovery after photobleaching (FRAP) to investigate the interactions of LC3 with Atg4B(C74A), a catalytically inactive mutant of the cysteine protease involved in lipidation and de-lipidation of LC3, as a model system to probe protein complex formation in the autophagy pathway. We show Atg4B(C74A) is in FRET proximity with LC3 in both the cytoplasm and nucleus of living cells, consistent with previous biochemical evidence that suggests these proteins directly interact. In addition, overexpressed Atg4B(C74A) diffuses significantly more slowly than predicted based on its molecular weight, and its translational diffusion coefficient is significantly slowed upon coexpression with LC3 to match that of LC3 itself. Taken together, these results suggest Atg4B(C74A) and LC3 are contained within the same multiprotein complex and that this complex exists in both the cytoplasm and nucleoplasm of living cells.
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Affiliation(s)
- Lewis J. Kraft
- Vanderbilt University School of Medicine, Chemical and Physical Biology Program, Nashville, Tennessee 37232
| | - Anne K. Kenworthy
- Vanderbilt University School of Medicine, Chemical and Physical Biology Program, Nashville, Tennessee 37232
- Vanderbilt University School of Medicine, Department of Molecular Physiology and Biophysics, Nashville, Tennessee 37232
- Vanderbilt University School of Medicine, Department of Cell and Developmental Biology, Nashville, Tennessee 37232
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Jotwani A, Richerson DN, Motta I, Julca-Zevallos O, Melia TJ. Approaches to the Study of Atg8-Mediated Membrane Dynamics In Vitro. Methods Cell Biol 2012; 108:93-116. [DOI: 10.1016/b978-0-12-386487-1.00005-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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