1
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Isaikina P, Petrovic I, Jakob RP, Sarma P, Ranjan A, Baruah M, Panwalkar V, Maier T, Shukla AK, Grzesiek S. A key GPCR phosphorylation motif discovered in arrestin2⋅CCR5 phosphopeptide complexes. Mol Cell 2023:S1097-2765(23)00326-X. [PMID: 37244255 DOI: 10.1016/j.molcel.2023.05.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2022] [Revised: 02/15/2023] [Accepted: 05/02/2023] [Indexed: 05/29/2023]
Abstract
The two non-visual arrestins, arrestin2 and arrestin3, bind hundreds of GPCRs with different phosphorylation patterns, leading to distinct functional outcomes. Structural information on these interactions is available only for very few GPCRs. Here, we have characterized the interactions between the phosphorylated human CC chemokine receptor 5 (CCR5) and arrestin2. We identified several new CCR5 phosphorylation sites necessary for stable arrestin2 complex formation. Structures of arrestin2 in the apo form and complexes with CCR5 C-terminal phosphopeptides, together with NMR, biochemical, and functional assays, revealed three phosphoresidues in a pXpp motif that are essential for arrestin2 binding and activation. The identified motif appears responsible for robust arrestin2 recruitment in many other GPCRs. An analysis of receptor sequences and available structural and functional information provides hints on the molecular basis of arrestin2/arrestin3 isoform specificity. Our findings demonstrate how multi-site phosphorylation controls GPCR⋅arrestin interactions and provide a framework to probe the intricate details of arrestin signaling.
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Affiliation(s)
- Polina Isaikina
- Focal Area Structural Biology and Biophysics, Biozentrum, University of Basel, 4056 Basel, Switzerland.
| | - Ivana Petrovic
- Focal Area Structural Biology and Biophysics, Biozentrum, University of Basel, 4056 Basel, Switzerland
| | - Roman P Jakob
- Focal Area Structural Biology and Biophysics, Biozentrum, University of Basel, 4056 Basel, Switzerland
| | - Parishmita Sarma
- Department of Biological Sciences and Bioengineering, Indian Institute of Technology, Kanpur 208016, India
| | - Ashutosh Ranjan
- Department of Biological Sciences and Bioengineering, Indian Institute of Technology, Kanpur 208016, India
| | - Minakshi Baruah
- Department of Biological Sciences and Bioengineering, Indian Institute of Technology, Kanpur 208016, India
| | - Vineet Panwalkar
- Focal Area Structural Biology and Biophysics, Biozentrum, University of Basel, 4056 Basel, Switzerland
| | - Timm Maier
- Focal Area Structural Biology and Biophysics, Biozentrum, University of Basel, 4056 Basel, Switzerland
| | - Arun K Shukla
- Department of Biological Sciences and Bioengineering, Indian Institute of Technology, Kanpur 208016, India.
| | - Stephan Grzesiek
- Focal Area Structural Biology and Biophysics, Biozentrum, University of Basel, 4056 Basel, Switzerland.
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2
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Hemmer S, Schulte M, Knieps-Grünhagen E, Granzin J, Willbold D, Jaeger KE, Batra-Safferling R, Panwalkar V, Krauss U. Residue alterations within a conserved hydrophobic pocket influence light, oxygen, voltage photoreceptor dark recovery. Photochem Photobiol Sci 2022; 22:713-727. [PMID: 36480084 DOI: 10.1007/s43630-022-00346-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Accepted: 11/18/2022] [Indexed: 12/14/2022]
Abstract
AbstractLight, oxygen, voltage (LOV) photoreceptors are widely distributed throughout all kingdoms of life, and have in recent years, due to their modular nature, been broadly used as sensor domains for the construction of optogenetic tools. For understanding photoreceptor function as well as for optogenetic tool design and fine-tuning, a detailed knowledge of the photophysics, photochemistry, and structural changes underlying the LOV signaling paradigm is instrumental. Mutations that alter the lifetime of the photo-adduct signaling state represent a convenient handle to tune LOV sensor on/off kinetics and, thus, steady-state on/off equilibria of the photoreceptor (or optogenetic switch). Such mutations, however, should ideally only influence sensor kinetics, while being benign with regard to the nature of the structural changes that are induced by illumination, i.e., they should not result in a disruption of signal transduction. In the present study, we identify a conserved hydrophobic pocket for which mutations have a strong impact on the adduct-state lifetime across different LOV photoreceptor families. Using the slow cycling bacterial short LOV photoreceptor PpSB1-LOV, we show that the I48T mutation within this pocket, which accelerates adduct rupture, is otherwise structurally and mechanistically benign, i.e., light-induced structural changes, as probed by NMR spectroscopy and X-ray crystallography, are not altered in the variant. Additional mutations within the pocket of PpSB1-LOV and the introduction of homologous mutations in the LOV photoreceptor YtvA of Bacillus subtilis and the Avena sativa LOV2 domain result in similarly altered kinetics. Given the conserved nature of the corresponding structural region, the here identified mutations should find application in dark-recovery tuning of optogenetic tools and LOV photoreceptors, alike.
Graphical abstract
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Affiliation(s)
- Stefanie Hemmer
- Institut Für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
- IBG-1: Biotechnology IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
| | - Marianne Schulte
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
- Institut Für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225, Düsseldorf, Germany
| | - Esther Knieps-Grünhagen
- Institut Für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
| | - Joachim Granzin
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
- JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, 52428, Jülich, Germany
| | - Dieter Willbold
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
- Institut Für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225, Düsseldorf, Germany
| | - Karl-Erich Jaeger
- Institut Für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
- IBG-1: Biotechnology IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
| | - Renu Batra-Safferling
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
- JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, 52428, Jülich, Germany
| | - Vineet Panwalkar
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
- Institut Für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225, Düsseldorf, Germany
- Biozentrum University of Basel, CH-4056, Basel, Switzerland
| | - Ulrich Krauss
- Institut Für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany.
- IBG-1: Biotechnology IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany.
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3
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Schulte M, Petrović D, Neudecker P, Hartmann R, Pietruszka J, Willbold S, Willbold D, Panwalkar V. Conformational Sampling of the Intrinsically Disordered C-Terminal Tail of DERA Is Important for Enzyme Catalysis. ACS Catal 2018; 8:3971-3984. [PMID: 30101036 PMCID: PMC6080863 DOI: 10.1021/acscatal.7b04408] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2017] [Revised: 03/24/2018] [Indexed: 12/13/2022]
Abstract
2-Deoxyribose-5-phosphate aldolase (DERA) catalyzes the reversible conversion of acetaldehyde and glyceraldehyde-3-phosphate into deoxyribose-5-phosphate. DERA is used as a biocatalyst for the synthesis of drugs such as statins and is a promising pharmaceutical target due to its involvement in nucleotide catabolism. Despite previous biochemical studies suggesting the catalytic importance of the C-terminal tyrosine residue found in several bacterial DERAs, the structural and functional basis of its participation in catalysis remains elusive because the electron density for the last eight to nine residues (i.e., the C-terminal tail) is absent in all available crystal structures. Using a combination of NMR spectroscopy and molecular dynamics simulations, we conclusively show that the rarely studied C-terminal tail of E. coli DERA (ecDERA) is intrinsically disordered and exists in equilibrium between open and catalytically relevant closed states, where the C-terminal tyrosine (Y259) enters the active site. Nuclear Overhauser effect distance restraints, obtained due to the presence of a substantial closed state population, were used to derive the solution-state structure of the ecDERA closed state. Real-time NMR hydrogen/deuterium exchange experiments reveal that Y259 is required for efficiency of the proton abstraction step of the catalytic reaction. Phosphate titration experiments show that, in addition to the phosphate-binding residues located near the active site, as observed in the available crystal structures, ecDERA contains previously unknown auxiliary phosphate-binding residues on the C-terminal tail which could facilitate in orienting Y259 in an optimal position for catalysis. Thus, we present significant insights into the structural and mechanistic importance of the ecDERA C-terminal tail and illustrate the role of conformational sampling in enzyme catalysis.
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Affiliation(s)
- Marianne Schulte
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
- Institute of Complex Systems 6 (ICS-6): Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Dušan Petrović
- Institute of Complex Systems 6 (ICS-6): Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Philipp Neudecker
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
- Institute of Complex Systems 6 (ICS-6): Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Rudolf Hartmann
- Institute of Complex Systems 6 (ICS-6): Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Jörg Pietruszka
- Institute of Bioorganic Chemistry, Heinrich-Heine-Universität im Forschungszentrum Jülich, 52425 Jülich, Germany
- Institute of Bio- and Geosciences 1 (IBG-1): Biotechnology, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Sabine Willbold
- Central Institute of Engineering, Electronics and Analytics (ZEA-3), Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Dieter Willbold
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
- Institute of Complex Systems 6 (ICS-6): Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Vineet Panwalkar
- Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, 40225 Düsseldorf, Germany
- Institute of Complex Systems 6 (ICS-6): Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich, Germany
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4
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Schulte M, Panwalkar V, Freischem S, Willbold D, Dingley AJ. Proline Restricts Loop I Conformation of the High Affinity WW Domain from Human Nedd4-1 to a Ligand Binding-Competent Type I β-Turn. J Phys Chem B 2018; 122:4219-4230. [PMID: 29595969 DOI: 10.1021/acs.jpcb.7b11637] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Sequence alignment of the four WW domains from human Nedd4-1 (neuronal precursor cell expressed developmentally down-regulated gene 4-1) reveals that the highest sequence diversity exists in loop I. Three residues in this type I β-turn interact with the PPxY motif of the human epithelial Na+ channel (hENaC) subunits, indicating that peptide affinity is defined by the loop I sequence. The third WW domain (WW3*) has the highest ligand affinity and unlike the other three hNedd4-1 WW domains or other WW domains studied contains the highly statistically preferred proline at the ( i + 1) position found in β-turns. In this report, molecular dynamics simulations and experimental data were combined to characterize loop I stability and dynamics. Exchange of the proline to the equivalent residue in WW4 (Thr) results in the presence of a predominantly open seven residue Ω loop rather than the type I β-turn conformation for the wild-type apo-WW3*. In the presence of the ligand, the structure of the mutated loop I is locked into a type I β-turn. Thus, proline in loop I ensures a stable peptide binding-competent β-turn conformation, indicating that amino acid sequence modulates local flexibility to tune binding preferences and stability of dynamic interaction motifs.
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Affiliation(s)
- Marianne Schulte
- ICS-6 (Strukturbiochemie) , Forschungszentrum Jülich , 52425 Jülich , Germany.,Institut für Physikalische Biologie , Heinrich-Heine-Universität , 40225 Düsseldorf , Germany
| | - Vineet Panwalkar
- ICS-6 (Strukturbiochemie) , Forschungszentrum Jülich , 52425 Jülich , Germany.,Institut für Physikalische Biologie , Heinrich-Heine-Universität , 40225 Düsseldorf , Germany
| | - Stefan Freischem
- ICS-6 (Strukturbiochemie) , Forschungszentrum Jülich , 52425 Jülich , Germany.,Institut für Physikalische Biologie , Heinrich-Heine-Universität , 40225 Düsseldorf , Germany
| | - Dieter Willbold
- ICS-6 (Strukturbiochemie) , Forschungszentrum Jülich , 52425 Jülich , Germany.,Institut für Physikalische Biologie , Heinrich-Heine-Universität , 40225 Düsseldorf , Germany
| | - Andrew J Dingley
- ICS-6 (Strukturbiochemie) , Forschungszentrum Jülich , 52425 Jülich , Germany.,Institut für Physikalische Biologie , Heinrich-Heine-Universität , 40225 Düsseldorf , Germany
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5
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Caruso IP, Panwalkar V, Coronado MA, Dingley AJ, Cornélio ML, Willbold D, Arni RK, Eberle RJ. Structure and interaction of Corynebacterium pseudotuberculosis cold shock protein A with Y-box single-stranded DNA fragment. FEBS J 2017; 285:372-390. [PMID: 29197185 DOI: 10.1111/febs.14350] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Revised: 11/07/2017] [Accepted: 11/29/2017] [Indexed: 11/28/2022]
Abstract
Cold shock proteins (Csps) function to preserve cell viability at low temperatures by binding to nucleic acids and consequently control gene expression. The mesophilic bacterium Corynebacterium pseudotuberculosis is the causative agent of caseous lymphadenitis in animals, and infection in livestock is a considerable economic burden worldwide. In this report, the structure of cold shock protein A from Cp (Cp-CspA) and biochemical analysis of its temperature-dependent interaction with a Y-box ssDNA motif is presented. The Cp-CspA structure contains five β-strands making up a β-barrel fold with 11 hydrophobic core residues and two salt bridges that confers it with a melting temperature of ~ 54 °C that is similar to mesophilic Bs-CspB. Chemical shift perturbations analysis revealed that residues in the nucleic acid-binding motifs (RNP 1 and 2) and loop 3 are involved in binding to the Y-box fragment either by direct interaction or by conformational rearrangements remote from the binding region. Fluorescence quenching experiments of Cp-CspA showed that the dissociation constants for Y-box ssDNA binding is nanomolar and the binding affinity decreased as the temperature increased, indicating that the interaction is enthalpically driven and the hydrogen bonds and van der Waals forces are important contributions for complex stabilization. The Y31 of Cp-CspA is a particular occurrence among Csps from mesophilic bacteria that provide a possible explanation for the higher binding affinity to ssDNA than that observed for Bs-CspB. Anisotropy measurements indicated that the reduction in molecular mobility of Cp-CspA upon Y-box binding is characterized by a cooperative process. DATABASE Resonance assignment and structural data are available in the Biological Magnetic Resonance Data Bank and Protein Data Bank under accession number 26802 and 5O6F, respectively.
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Affiliation(s)
- Icaro P Caruso
- Department of Physics, Multiuser Center for Biomolecular Innovation (CMIB), IBILCE/UNESP, São José do Rio Preto, São Paulo, Brazil
| | - Vineet Panwalkar
- Institute of Complex System, Structural Biochemistry (ICS-6), Forchungszentrum Jülich, Germany.,Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, Universitätsstraße, Germany
| | - Monika A Coronado
- Department of Physics, Multiuser Center for Biomolecular Innovation (CMIB), IBILCE/UNESP, São José do Rio Preto, São Paulo, Brazil
| | - Andrew J Dingley
- Institute of Complex System, Structural Biochemistry (ICS-6), Forchungszentrum Jülich, Germany.,Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, Universitätsstraße, Germany
| | - Marinônio L Cornélio
- Department of Physics, Multiuser Center for Biomolecular Innovation (CMIB), IBILCE/UNESP, São José do Rio Preto, São Paulo, Brazil
| | - Dieter Willbold
- Institute of Complex System, Structural Biochemistry (ICS-6), Forchungszentrum Jülich, Germany.,Institut für Physikalische Biologie, Heinrich-Heine-Universität Düsseldorf, Universitätsstraße, Germany
| | - Raghuvir K Arni
- Department of Physics, Multiuser Center for Biomolecular Innovation (CMIB), IBILCE/UNESP, São José do Rio Preto, São Paulo, Brazil
| | - Raphael J Eberle
- Department of Physics, Multiuser Center for Biomolecular Innovation (CMIB), IBILCE/UNESP, São José do Rio Preto, São Paulo, Brazil
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6
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Schulte M, Stoldt M, Neudecker P, Pietruszka J, Willbold D, Panwalkar V. 1H, 13C, and 15N backbone and sidechain resonance assignments of a monomeric variant of E. coli deoxyribose-5-phosphate aldolase. Biomol NMR Assign 2017; 11:197-201. [PMID: 28560616 DOI: 10.1007/s12104-017-9747-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Accepted: 05/29/2017] [Indexed: 06/07/2023]
Abstract
Deoxyribose-5-phosphate aldolase (DERA) catalyses the reversible conversion of 2-deoxyribose-5-phosphate (dR5P) into glyceraldehyde-3-phosphate (G3P) and acetaldehyde. For industrial applications, this enzyme is used in organic synthesis for aldol reactions between acetaldehyde as a donor and a wide range of aldehydes as acceptors. Here, we present a near complete set of sequence-specific 1H, 13C and 15N resonance assignments of a 28 kDa monomeric variant of the Escherichia coli DERA. These assignments provide the basis for ongoing structural and dynamic analysis of DERA substrate specificity.
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Affiliation(s)
- Marianne Schulte
- ICS-6 (Strukturbiochemie), Forschungszentrum Jülich, 52425, Jülich, Germany
- Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225, Düsseldorf, Germany
| | - Matthias Stoldt
- ICS-6 (Strukturbiochemie), Forschungszentrum Jülich, 52425, Jülich, Germany
- Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225, Düsseldorf, Germany
| | - Philipp Neudecker
- ICS-6 (Strukturbiochemie), Forschungszentrum Jülich, 52425, Jülich, Germany
- Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225, Düsseldorf, Germany
| | - Jӧrg Pietruszka
- Institute of Bioorganic Chemistry, Heinrich-Heine-Universität im Forschungszentrum Jülich, 40225, Düsseldorf, Germany
- Institute of Bio- and Geosciences IBG-1: Biotechnology, Forschungszentrum Jülich, 52425, Jülich, Germany
| | - Dieter Willbold
- ICS-6 (Strukturbiochemie), Forschungszentrum Jülich, 52425, Jülich, Germany
- Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225, Düsseldorf, Germany
| | - Vineet Panwalkar
- ICS-6 (Strukturbiochemie), Forschungszentrum Jülich, 52425, Jülich, Germany.
- Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225, Düsseldorf, Germany.
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7
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Schillinger O, Panwalkar V, Strodel B, Dingley AJ. Molecular Dynamics Simulations Reveal Key Roles of the Interleukin-6 Alpha Receptor in the Assembly of the Human Interleukin-6 Receptor Complex. J Phys Chem B 2017; 121:8113-8122. [PMID: 28783950 DOI: 10.1021/acs.jpcb.7b05732] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Human interleukin-6 (hIL-6) is a pleiotropic cytokine with three distinct receptor epitopes, termed sites I, II, and III, which function to assemble a signaling complex. hIL-6 signals via a glycoprotein 130 (gp130) homodimer after initially forming a heterodimer with the nonsignaling α-receptor (IL-6Rα). The molecular description of the assembly of the hIL-6 signaling complex remains elusive because available structures provide descriptions of hIL-6 in its free and fully bound receptor forms, but not for intermediate steps that are crucial in the stepwise assembly of the signaling complex. In this report, molecular dynamics simulations provide atomic details describing the functional role of the initial hIL-6/IL-6Rα complex in facilitating subsequent interactions with gp130, which have not been previously shown. IL-6Rα binding to hIL-6 rigidifies the flexible N-terminus of the hIL-6 AB-loop through interactions with the D2 domain of IL-6Rα. This rigidification combined with repositioning of residues involved in gp130 receptor recognition promotes gp130 binding at site III. Binding of gp130 receptors at sites II and III is coupled with the release of the hIL-6 N-terminal AB-loop interaction and a pivoting of IL-6Rα around the hIL-6 helix bundle to the state of the hIL-6/IL-6Rα/gp130 complex.
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Affiliation(s)
- Oliver Schillinger
- Institute of Complex Systems, Structural Biochemistry (ICS-6), Forschungszentrum Jülich , 52425 Jülich, Germany.,Institut für Physikalische Biologie, Heinrich-Heine-Universität , 40225 Düsseldorf, Germany
| | - Vineet Panwalkar
- Institute of Complex Systems, Structural Biochemistry (ICS-6), Forschungszentrum Jülich , 52425 Jülich, Germany.,Institut für Physikalische Biologie, Heinrich-Heine-Universität , 40225 Düsseldorf, Germany
| | - Birgit Strodel
- Institute of Complex Systems, Structural Biochemistry (ICS-6), Forschungszentrum Jülich , 52425 Jülich, Germany.,Institut für Theoretische Chemie und Computerchemie, Heinrich-Heine-Universität , 40225 Düsseldorf, Germany
| | - Andrew J Dingley
- Institute of Complex Systems, Structural Biochemistry (ICS-6), Forschungszentrum Jülich , 52425 Jülich, Germany.,Institut für Physikalische Biologie, Heinrich-Heine-Universität , 40225 Düsseldorf, Germany
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8
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Panwalkar V, Neudecker P, Willbold D, Dingley AJ. Multiple WW domains of Nedd4-1 undergo conformational exchange that is quenched upon peptide binding. FEBS Lett 2017; 591:1573-1583. [DOI: 10.1002/1873-3468.12664] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2017] [Revised: 04/26/2017] [Accepted: 04/26/2017] [Indexed: 01/02/2023]
Affiliation(s)
- Vineet Panwalkar
- ICS-6 (Strukturbiochemie); Forschungszentrum Jülich; Germany
- Institut für Physikalische Biologie; Heinrich-Heine-Universität; Düsseldorf Germany
| | - Philipp Neudecker
- ICS-6 (Strukturbiochemie); Forschungszentrum Jülich; Germany
- Institut für Physikalische Biologie; Heinrich-Heine-Universität; Düsseldorf Germany
| | - Dieter Willbold
- ICS-6 (Strukturbiochemie); Forschungszentrum Jülich; Germany
- Institut für Physikalische Biologie; Heinrich-Heine-Universität; Düsseldorf Germany
| | - Andrew J. Dingley
- ICS-6 (Strukturbiochemie); Forschungszentrum Jülich; Germany
- Institut für Physikalische Biologie; Heinrich-Heine-Universität; Düsseldorf Germany
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9
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Röllen K, Granzin J, Panwalkar V, Arinkin V, Rani R, Hartmann R, Krauss U, Jaeger KE, Willbold D, Batra-Safferling R. Signaling States of a Short Blue-Light Photoreceptor Protein PpSB1-LOV Revealed from Crystal Structures and Solution NMR Spectroscopy. J Mol Biol 2016; 428:3721-36. [DOI: 10.1016/j.jmb.2016.05.027] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2016] [Revised: 05/12/2016] [Accepted: 05/14/2016] [Indexed: 11/30/2022]
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10
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Panwalkar V, Schulte M, Lecher J, Stoldt M, Willbold D, Dingley AJ. Data describing the solution structure of the WW3* domain from human Nedd4-1. Data Brief 2016; 8:605-12. [PMID: 27419198 PMCID: PMC4936499 DOI: 10.1016/j.dib.2016.06.024] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2016] [Revised: 05/26/2016] [Accepted: 06/15/2016] [Indexed: 12/05/2022] Open
Abstract
The third WW domain (WW3*) of human Nedd4-1 (Neuronal precursor cell expressed developmentally down-regulated gene 4-1) interacts with the poly-proline (PY) motifs of the human epithelial Na+ channel (hENaC) subunits at micromolar affinity. This data supplements the article (Panwalkar et al., 2015) [1]. We describe the NMR experiments used to solve the solution structure of the WW3* domain. We also present NOE network data for defining the rotameric state of side chains of peptide binding residues, and complement this data with χ1 dihedral angles derived from 3J couplings and molecular dynamics simulations data.
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Affiliation(s)
- Vineet Panwalkar
- ICS-6 Strukturbiochemie, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Marianne Schulte
- ICS-6 Strukturbiochemie, Forschungszentrum Jülich, 52425 Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | - Justin Lecher
- ICS-6 Strukturbiochemie, Forschungszentrum Jülich, 52425 Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | - Matthias Stoldt
- ICS-6 Strukturbiochemie, Forschungszentrum Jülich, 52425 Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | - Dieter Willbold
- ICS-6 Strukturbiochemie, Forschungszentrum Jülich, 52425 Jülich, Germany; Institut für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | - Andrew J Dingley
- ICS-6 Strukturbiochemie, Forschungszentrum Jülich, 52425 Jülich, Germany
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Panwalkar V, Neudecker P, Schmitz M, Lecher J, Schulte M, Medini K, Stoldt M, Brimble MA, Willbold D, Dingley AJ. The Nedd4–1 WW Domain Recognizes the PY Motif Peptide through Coupled Folding and Binding Equilibria. Biochemistry 2016; 55:659-74. [DOI: 10.1021/acs.biochem.5b01028] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Vineet Panwalkar
- ICS-6
(Strukturbiochemie), Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Philipp Neudecker
- ICS-6
(Strukturbiochemie), Forschungszentrum Jülich, 52425 Jülich, Germany
- Institut
für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | | | - Justin Lecher
- ICS-6
(Strukturbiochemie), Forschungszentrum Jülich, 52425 Jülich, Germany
- Institut
für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | - Marianne Schulte
- ICS-6
(Strukturbiochemie), Forschungszentrum Jülich, 52425 Jülich, Germany
- Institut
für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | | | - Matthias Stoldt
- ICS-6
(Strukturbiochemie), Forschungszentrum Jülich, 52425 Jülich, Germany
- Institut
für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | | | - Dieter Willbold
- ICS-6
(Strukturbiochemie), Forschungszentrum Jülich, 52425 Jülich, Germany
- Institut
für Physikalische Biologie, Heinrich-Heine-Universität, 40225 Düsseldorf, Germany
| | - Andrew J. Dingley
- ICS-6
(Strukturbiochemie), Forschungszentrum Jülich, 52425 Jülich, Germany
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