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1.
Nature ; 601(7893): 465-469, 2022 01.
Article in English | MEDLINE | ID: mdl-34937936

ABSTRACT

Hsp90 is a conserved and essential molecular chaperone responsible for the folding and activation of hundreds of 'client' proteins1-3. The glucocorticoid receptor (GR) is a model client that constantly depends on Hsp90 for activity4-9. GR ligand binding was previously shown to nr inhibited by Hsp70 and restored by Hsp90, aided by the co-chaperone p2310. However, a molecular understanding of the chaperone-mediated remodelling that occurs between the inactive Hsp70-Hsp90 'client-loading complex' and an activated Hsp90-p23 'client-maturation complex' is lacking for any client, including GR. Here we present a cryo-electron microscopy (cryo-EM) structure of the human GR-maturation complex (GR-Hsp90-p23), revealing that the GR ligand-binding domain is restored to a folded, ligand-bound conformation, while being simultaneously threaded through the Hsp90 lumen. In addition, p23 directly stabilizes native GR using a C-terminal helix, resulting in enhanced ligand binding. This structure of a client bound to Hsp90 in a native conformation contrasts sharply with the unfolded kinase-Hsp90 structure11. Thus, aided by direct co-chaperone-client interactions, Hsp90 can directly dictate client-specific folding outcomes. Together with the GR-loading complex structure12, we present the molecular mechanism of chaperone-mediated GR remodelling, establishing the first, to our knowledge, complete chaperone cycle for any Hsp90 client.


Subject(s)
Cryoelectron Microscopy , HSP90 Heat-Shock Proteins , Prostaglandin-E Synthases , Receptors, Glucocorticoid , HSP70 Heat-Shock Proteins/chemistry , HSP70 Heat-Shock Proteins/metabolism , HSP70 Heat-Shock Proteins/ultrastructure , HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/metabolism , HSP90 Heat-Shock Proteins/ultrastructure , Humans , Ligands , Molecular Chaperones/chemistry , Molecular Chaperones/metabolism , Molecular Chaperones/ultrastructure , Prostaglandin-E Synthases/chemistry , Prostaglandin-E Synthases/metabolism , Prostaglandin-E Synthases/ultrastructure , Protein Binding , Receptors, Glucocorticoid/chemistry , Receptors, Glucocorticoid/metabolism , Receptors, Glucocorticoid/ultrastructure
2.
Sci Rep ; 11(1): 12515, 2021 06 15.
Article in English | MEDLINE | ID: mdl-34131228

ABSTRACT

The glucocorticoid receptor is a key regulator of essential physiological processes, which under the control of the Hsp90 chaperone machinery, binds to steroid hormones and steroid-like molecules and in a rather complicated and elusive response, regulates a set of glucocorticoid responsive genes. We here examine a human glucocorticoid receptor variant, harboring a point mutation in the last C-terminal residues, L773P, that was associated to Primary Generalized Glucocorticoid Resistance, a condition originating from decreased affinity to hormone, impairing one or multiple aspects of GR action. Using in vitro and in silico methods, we assign the conformational consequences of this mutation to particular GR elements and report on the altered receptor properties regarding its binding to dexamethasone, a NCOA-2 coactivator-derived peptide, DNA, and importantly, its interaction with the chaperone machinery of Hsp90.


Subject(s)
Glucocorticoids/genetics , HSP90 Heat-Shock Proteins/genetics , Molecular Conformation/drug effects , Receptors, Glucocorticoid/genetics , Animals , DNA/genetics , Dexamethasone/pharmacology , Glucocorticoids/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , Humans , Metabolism, Inborn Errors/genetics , Metabolism, Inborn Errors/pathology , Molecular Chaperones/genetics , Molecular Chaperones/ultrastructure , Nuclear Receptor Coactivator 2/chemistry , Nuclear Receptor Coactivator 2/genetics , Peptides/genetics , Point Mutation/genetics , Protein Binding/genetics , Receptors, Glucocorticoid/deficiency , Receptors, Glucocorticoid/ultrastructure
3.
PLoS Comput Biol ; 12(6): e1004840, 2016 06.
Article in English | MEDLINE | ID: mdl-27253209

ABSTRACT

A key question in mapping dynamics of protein-ligand interactions is to distinguish changes at binding sites from those associated with long range conformational changes upon binding at distal sites. This assumes a greater challenge when considering the interactions of low affinity ligands (dissociation constants, KD, in the µM range or lower). Amide hydrogen deuterium Exchange mass spectrometry (HDXMS) is a robust method that can provide both structural insights and dynamics information on both high affinity and transient protein-ligand interactions. In this study, an application of HDXMS for probing the dynamics of low affinity ligands to proteins is described using the N-terminal ATPase domain of Hsp90. Comparison of Hsp90 dynamics between high affinity natural inhibitors (KD ~ nM) and fragment compounds reveal that HDXMS is highly sensitive in mapping the interactions of both high and low affinity ligands. HDXMS reports on changes that reflect both orthosteric effects and allosteric changes accompanying binding. Orthosteric sites can be identified by overlaying HDXMS onto structural information of protein-ligand complexes. Regions distal to orthosteric sites indicate long range conformational changes with implications for allostery. HDXMS, thus finds powerful utility as a high throughput method for compound library screening to identify binding sites and describe allostery with important implications for fragment-based ligand discovery (FBLD).


Subject(s)
Deuterium Exchange Measurement/methods , Drug Design , HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , Mass Spectrometry/methods , Protein Interaction Mapping/methods , Allosteric Site , Binding Sites , Enzyme Activation , Ligands , Molecular Docking Simulation/methods , Protein Binding , Protein Conformation , Substrate Specificity
4.
Science ; 352(6293): 1542-7, 2016 Jun 24.
Article in English | MEDLINE | ID: mdl-27339980

ABSTRACT

The Hsp90 molecular chaperone and its Cdc37 cochaperone help stabilize and activate more than half of the human kinome. However, both the mechanism by which these chaperones assist their "client" kinases and the reason why some kinases are addicted to Hsp90 while closely related family members are independent are unknown. Our structural understanding of these interactions is lacking, as no full-length structures of human Hsp90, Cdc37, or either of these proteins with a kinase have been elucidated. Here we report a 3.9 angstrom cryo-electron microscopy structure of the Hsp90-Cdc37-Cdk4 kinase complex. Surprisingly, the two lobes of Cdk4 are completely separated with the ß4-ß5 sheet unfolded. Cdc37 mimics part of the kinase N lobe, stabilizing an open kinase conformation by wedging itself between the two lobes. Finally, Hsp90 clamps around the unfolded kinase ß5 strand and interacts with exposed N- and C-lobe interfaces, protecting the kinase in a trapped unfolded state. On the basis of this structure and an extensive amount of previously collected data, we propose unifying conceptual and mechanistic models of chaperone-kinase interactions.


Subject(s)
Cell Cycle Proteins/chemistry , Chaperonins/chemistry , Cyclin-Dependent Kinase 4/chemistry , HSP90 Heat-Shock Proteins/chemistry , Multiprotein Complexes/chemistry , Protein Unfolding , Animals , Cell Cycle Proteins/ultrastructure , Chaperonins/ultrastructure , Cyclin-Dependent Kinase 4/ultrastructure , Enzyme Stability , HSP90 Heat-Shock Proteins/ultrastructure , Humans , Models, Molecular , Multiprotein Complexes/ultrastructure , Protein Structure, Secondary , Sf9 Cells
5.
Arch Biochem Biophys ; 600: 12-22, 2016 06 15.
Article in English | MEDLINE | ID: mdl-27103305

ABSTRACT

Parasites belonging to the genus Leishmania are subjected to extensive environmental changes during their life cycle; molecular chaperones/co-chaperones act as protagonists in this scenario to maintain cellular homeostasis. Hop/Sti1 is a co-chaperone that connects the Hsp90 and Hsp70 systems, modulating their ATPase activities and affecting the fate of client proteins because it facilitates their transfer from the Hsp70 to the Hsp90 chaperone. Hop/Sti1 is one of the most prevalent co-chaperones, highlighting its importance despite the relatively low sequence identity among orthologue proteins. This multi-domain protein comprises three tetratricopeptides domains (TPR1, TPR2A and TPR2B) and two Asp/Pro-rich domains. Given the importance of Hop/Sti1 for the chaperone system and for Leishmania protozoa viability, the Leishmania braziliensis Hop (LbHop) and a truncated mutant (LbHop(TPR2AB)) were characterized. Structurally, both proteins are α-helix-rich and highly elongated monomeric proteins. Functionally, they inhibited the ATPase activity of Leishmania braziliensis Hsp90 (LbHsp90) to a similar extent, and the thermodynamic parameters of their interactions with LbHsp90 were similar, indicating that TPR2A-TPR2B forms the functional center for the LbHop interaction with LbHsp90. These results highlight the structural and functional similarity of Hop/Sti1 proteins, despite their low sequence conservation compared to the Hsp70 and Hsp90 systems, which are phylogenetic highly conserved.


Subject(s)
HSP70 Heat-Shock Proteins/chemistry , HSP70 Heat-Shock Proteins/ultrastructure , HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , Heat-Shock Proteins/chemistry , Heat-Shock Proteins/ultrastructure , Leishmania braziliensis/enzymology , Protozoan Proteins/chemistry , Protozoan Proteins/ultrastructure , Amino Acid Sequence , Binding Sites , Conserved Sequence , Enzyme Activation , Molecular Sequence Data , Protein Binding , Protein Conformation , Sequence Homology, Amino Acid , Structure-Activity Relationship
6.
Nat Commun ; 5: 5484, 2014 Nov 19.
Article in English | MEDLINE | ID: mdl-25407331

ABSTRACT

In eukarya, chaperones Hsp70 and Hsp90 act coordinately in the folding and maturation of a range of key proteins with the help of several co-chaperones, especially Hop. Although biochemical data define the Hop-mediated Hsp70-Hsp90 substrate transfer mechanism, the intrinsic flexibility of these proteins and the dynamic nature of their complexes have limited the structural studies of this mechanism. Here we generate several complexes in the Hsp70/Hsp90 folding pathway (Hsp90:Hop, Hsp90:Hop:Hsp70 and Hsp90:Hop:Hsp70 with a fragment of the client protein glucocorticoid receptor (GR-LBD)), and determine their 3D structure using electron microscopy techniques. Our results show that one Hop molecule binds to one side of the Hsp90 dimer in both extended and compact conformations, through Hop domain rearrangement that take place when Hsp70 or Hsp70:GR-LBD bind to Hsp90:Hop. The compact conformation of the Hsp90:Hop:Hsp70:GR-LBD complex shows that GR-LBD binds to the side of the Hsp90 dimer opposite the Hop attachment site.


Subject(s)
HSP70 Heat-Shock Proteins/metabolism , HSP90 Heat-Shock Proteins/metabolism , HSP40 Heat-Shock Proteins/metabolism , HSP70 Heat-Shock Proteins/ultrastructure , HSP90 Heat-Shock Proteins/ultrastructure , Heat-Shock Proteins/ultrastructure , Humans , Microscopy, Electron , Protein Binding , Protein Folding , Protein Structure, Tertiary , Receptors, Glucocorticoid/metabolism
7.
PLoS Comput Biol ; 8(3): e1002433, 2012.
Article in English | MEDLINE | ID: mdl-22457611

ABSTRACT

Understanding how local protein modifications, such as binding small-molecule ligands, can trigger and regulate large-scale motions of large protein domains is a major open issue in molecular biology. We address various aspects of this problem by analyzing and comparing atomistic simulations of Hsp90 family representatives for which crystal structures of the full length protein are available: mammalian Grp94, yeast Hsp90 and E.coli HtpG. These chaperones are studied in complex with the natural ligands ATP, ADP and in the Apo state. Common key aspects of their functional dynamics are elucidated with a novel multi-scale comparison of their internal dynamics. Starting from the atomic resolution investigation of internal fluctuations and geometric strain patterns, a novel analysis of domain dynamics is developed. The results reveal that the ligand-dependent structural modulations mostly consist of relative rigid-like movements of a limited number of quasi-rigid domains, shared by the three proteins. Two common primary hinges for such movements are identified. The first hinge, whose functional role has been demonstrated by several experimental approaches, is located at the boundary between the N-terminal and Middle-domains. The second hinge is located at the end of a three-helix bundle in the Middle-domain and unfolds/unpacks going from the ATP- to the ADP-state. This latter site could represent a promising novel druggable allosteric site common to all chaperones.


Subject(s)
HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , Models, Chemical , Models, Molecular , Computer Simulation , Motion , Protein Conformation
8.
Mol Cell ; 42(6): 771-81, 2011 Jun 24.
Article in English | MEDLINE | ID: mdl-21700222

ABSTRACT

Hsp90 is an essential molecular chaperone required for the folding and activation of many hundreds of cellular "client" proteins. The ATP-dependent chaperone cycle involves significant conformational rearrangements of the Hsp90 dimer and interaction with a network of cochaperone proteins. Little is known about the mechanism of client protein binding or how cochaperone interactions modulate Hsp90 conformational states. We have determined the cryo-EM structure of the human Hsp90:Hop complex that receives client proteins from the Hsp70 chaperone. Hop stabilizes an alternate Hsp90 open state, where hydrophobic client-binding surfaces have converged and the N-terminal domains have rotated and match the closed, ATP conformation. Hsp90 is thus simultaneously poised for client loading by Hsp70 and subsequent N-terminal dimerization and ATP hydrolysis. Upon binding of a single Hsp70, the Hsp90:Hop conformation remains essentially unchanged. These results identify distinct functions for the Hop cochaperone, revealing an asymmetric mechanism for Hsp90 regulation and client loading.


Subject(s)
Cryoelectron Microscopy , HSP90 Heat-Shock Proteins/chemistry , Homeodomain Proteins/chemistry , Tumor Suppressor Proteins/chemistry , Adenosine Triphosphate , Disulfides/chemistry , Disulfides/metabolism , HSP90 Heat-Shock Proteins/ultrastructure , Homeodomain Proteins/ultrastructure , Humans , Hydrolysis , Hydrophobic and Hydrophilic Interactions , Models, Molecular , Multiprotein Complexes/chemistry , Multiprotein Complexes/metabolism , Multiprotein Complexes/ultrastructure , Protein Conformation , Protein Multimerization , Surface Properties , Tumor Suppressor Proteins/ultrastructure
9.
Eur J Histochem ; 55(4): e38, 2011 Oct 24.
Article in English | MEDLINE | ID: mdl-22297444

ABSTRACT

Ulcerative colitis (UC) is a form of inflammatory bowel disease (IBD) characterized by damage of large bowel mucosa and frequent extra-intestinal autoimmune comorbidities. The role played in IBD pathogenesis by molecular chaperones known to interact with components of the immune system involved in inflammation is unclear. We previously demonstrated that mucosal Hsp60 decreases in UC patients treated with conventional therapies (mesalazine, probiotics), suggesting that this chaperonin could be a reliable biomarker useful for monitoring response to treatment, and that it might play a role in pathogenesis. In the present work we investigated three other heat shock protein/molecular chaperones: Hsp10, Hsp70, and Hsp90. We found that the levels of these proteins are increased in UC patients at the time of diagnosis and decrease after therapy, supporting the notion that these proteins deserve attention in the study of the mechanisms that promote the development and maintenance of IBD, and as biomarkers of this disease (e.g., to monitor response to treatment at the histological level).


Subject(s)
Anti-Inflammatory Agents, Non-Steroidal/therapeutic use , Chaperonin 10/metabolism , Colitis, Ulcerative/drug therapy , HSP70 Heat-Shock Proteins/metabolism , HSP90 Heat-Shock Proteins/metabolism , Mesalamine/therapeutic use , Anti-Inflammatory Agents, Non-Steroidal/pharmacology , Chaperonin 10/genetics , Chaperonin 10/ultrastructure , Colitis, Ulcerative/physiopathology , Down-Regulation/drug effects , HSP70 Heat-Shock Proteins/genetics , HSP70 Heat-Shock Proteins/ultrastructure , HSP90 Heat-Shock Proteins/genetics , HSP90 Heat-Shock Proteins/ultrastructure , Humans , Immunohistochemistry , Mesalamine/pharmacology
10.
J Mol Biol ; 390(2): 278-91, 2009 Jul 10.
Article in English | MEDLINE | ID: mdl-19427321

ABSTRACT

The molecular chaperone Hsp90 depends upon large conformational rearrangements for its function. One driving force for these rearrangements is the intrinsic ATPase activity of Hsp90, as seen with other chaperones. However, unlike other chaperones, structural and kinetic studies have shown that the ATPase cycle of Hsp90 is not conformationally deterministic. That is, rather than dictating the conformational state, ATP binding and hydrolysis shift the equilibrium between a preexisting set of conformational states in an organism-dependent manner. While many conformations of Hsp90 have been described, little is known about how they relate to chaperone function. In this study, we show that the conformational equilibrium of the bacterial Hsp90, HtpG, can be shifted with pH. Using small-angle X-ray scattering, we identify a two-state pH-dependent conformational equilibrium for apo HtpG. Our structural modeling reveals that this equilibrium is observed between the previously observed extended state and a second state that is strikingly similar to the recently solved Grp94 crystal structure. In the presence of nonhydrolyzable 5'-adenylyl-beta,gamma-imidodiphosphate, a third state, which is identical with the solved AMPPNP-bound structure from yeast Hsp90, is populated. Electron microscopy confirmed the observed conformational equilibria. We also identify key histidine residues that control this pH-dependent equilibrium; using mutagenesis, we successfully modulate the conformational equilibrium at neutral pH. Using these mutations, we show that the Grp94-like state provides stronger aggregation protection compared to the extended apo conformation in the context of a citrate synthase aggregation assay. These studies provide a more detailed view of HtpG's conformational dynamics and provide the first linkage between a specific conformation and chaperone function.


Subject(s)
Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Citrate (si)-Synthase/metabolism , HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/metabolism , Allosteric Regulation , Amino Acid Substitution/genetics , Bacterial Proteins/genetics , Bacterial Proteins/ultrastructure , HSP90 Heat-Shock Proteins/genetics , HSP90 Heat-Shock Proteins/ultrastructure , Hydrogen-Ion Concentration , Microscopy, Electron, Transmission , Models, Molecular , Mutagenesis, Site-Directed , Protein Conformation
11.
J Alzheimers Dis ; 17(2): 319-25, 2009.
Article in English | MEDLINE | ID: mdl-19363271

ABSTRACT

Tau pathology, associated with Alzheimer's disease, is characterized by the presence of phosphorylated and aggregated tau. Phosphorylation of tau takes place mainly in the vicinity of the tubulin-binding region of the molecule and its self aggregation is also mediated via this tubulin-binding region. Tau phosphorylation and aggregation have been related with conformational changes of the protein. These changes could be regulated by chaperones such as heat shock proteins, since one of these, heat shock protein 90 (Hsp90), has already been described as a putative tau-binding protein. In this work, we have confirmed the interaction of Hsp90 with tau protein and report that binding of Hsp90 to tau facilitates a conformational change that could result in its phosphorylation by glycogen synthase kinase 3 and its aggregation into filamentous structures.


Subject(s)
HSP90 Heat-Shock Proteins/metabolism , tau Proteins/metabolism , Animals , Biophysical Phenomena/physiology , Brain/metabolism , Glycogen Synthase Kinase 3/metabolism , Glycogen Synthase Kinase 3 beta , HSP90 Heat-Shock Proteins/ultrastructure , Humans , Immunoblotting/methods , Immunoprecipitation/methods , Microscopy, Electron, Scanning/methods , Phosphorylation , Protein Binding/drug effects , Protein Binding/physiology , Protein Conformation , Rats , tau Proteins/ultrastructure
12.
PLoS Comput Biol ; 5(3): e1000323, 2009 Mar.
Article in English | MEDLINE | ID: mdl-19300478

ABSTRACT

Hsp90 is a molecular chaperone essential for protein folding and activation in normal homeostasis and stress response. ATP binding and hydrolysis facilitate Hsp90 conformational changes required for client activation. Hsp90 plays an important role in disease states, particularly in cancer, where chaperoning of the mutated and overexpressed oncoproteins is important for function. Recent studies have illuminated mechanisms related to the chaperone function. However, an atomic resolution view of Hsp90 conformational dynamics, determined by the presence of different binding partners, is critical to define communication pathways between remote residues in different domains intimately affecting the chaperone cycle. Here, we present a computational analysis of signal propagation and long-range communication pathways in Hsp90. We carried out molecular dynamics simulations of the full-length Hsp90 dimer, combined with essential dynamics, correlation analysis, and a signal propagation model. All-atom MD simulations with timescales of 70 ns have been performed for complexes with the natural substrates ATP and ADP and for the unliganded dimer. We elucidate the mechanisms of signal propagation and determine "hot spots" involved in interdomain communication pathways from the nucleotide-binding site to the C-terminal domain interface. A comprehensive computational analysis of the Hsp90 communication pathways and dynamics at atomic resolution has revealed the role of the nucleotide in effecting conformational changes, elucidating the mechanisms of signal propagation. Functionally important residues and secondary structure elements emerge as effective mediators of communication between the nucleotide-binding site and the C-terminal interface. Furthermore, we show that specific interdomain signal propagation pathways may be activated as a function of the ligand. Our results support a "conformational selection model" of the Hsp90 mechanism, whereby the protein may exist in a dynamic equilibrium between different conformational states available on the energy landscape and binding of a specific partner can bias the equilibrium toward functionally relevant complexes.


Subject(s)
HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , Models, Chemical , Models, Molecular , Binding Sites , Computer Simulation , Dimerization , Ligands , Molecular Chaperones/chemistry , Protein Binding , Protein Conformation
13.
Mol Cell ; 32(5): 631-40, 2008 Dec 05.
Article in English | MEDLINE | ID: mdl-19061638

ABSTRACT

The molecular chaperone heat shock protein 90 (Hsp90) is required for the folding and activation of numerous essential signaling proteins. Hsp90 is generally thought to transition between an open (apo) and a closed (ATP) conformation in response to nucleotide. Here, 3D single-particle reconstructions of Escherichia coli and yeast Hsp90 homologs establish the existence of two distinct nucleotide-stabilized conformations (ATP, ADP) in addition to an apo extended state, supporting previous structural work. However, single-particle matching methods reveal that, rather than being irreversibly determined by nucleotide, a species-dependent dynamic conformational equilibrium exists between states. Using crosslinking methods, we trap transient nucleotide-specific states of yeast and human Hsp90 and establish that the apo, ATP, and ADP states are universal. These data support a conserved three-state chaperone cycle where the conformational equilibrium varies between species, implicating evolutionary tuning to meet the particular client protein and metabolic environment of an organism.


Subject(s)
Adenosine Triphosphatases/metabolism , Escherichia coli/metabolism , HSP90 Heat-Shock Proteins/chemistry , Saccharomyces cerevisiae/metabolism , Adenosine Diphosphate/metabolism , Adenosine Triphosphate/metabolism , Adenylyl Imidodiphosphate/metabolism , Cross-Linking Reagents/pharmacology , Dimerization , Escherichia coli Proteins/chemistry , Escherichia coli Proteins/ultrastructure , HSP90 Heat-Shock Proteins/ultrastructure , Humans , Microscopy, Electron , Models, Molecular , Protein Stability/drug effects , Protein Structure, Tertiary , Saccharomyces cerevisiae Proteins/chemistry , Saccharomyces cerevisiae Proteins/ultrastructure , Species Specificity
14.
Biol Cell ; 100(7): 413-25, 2008 Jul.
Article in English | MEDLINE | ID: mdl-18215117

ABSTRACT

BACKGROUND INFORMATION: Hsp90 (90 kDa heat-shock protein) plays a key role in the folding and activation of many client proteins involved in signal transduction and cell cycle control. The cycle of Hsp90 has been intimately associated with large conformational rearrangements, which are nucleotide-binding-dependent. However, up to now, our understanding of Hsp90 conformational changes derives from structural information, which refers to the crystal states of either recombinant Hsp90 constructs or the prokaryotic homologue HtpG (Hsp90 prokaryotic homologue). RESULTS AND DISCUSSION: Here, we present the first nucleotide-free structures of the entire eukaryotic Hsp90 (apo-Hsp90) obtained by small-angle X-ray scattering and single-particle cryo-EM (cryo-electron microscopy). We show that, in solution, apo-Hsp90 is in a conformational equilibrium between two open states that have never been described previously. By comparing our cryo-EM maps with HtpG and known Hsp90 structures, we establish that the structural changes involved in switching between the two Hsp90 apo-forms require large movements of the NTD (N-terminal domain) and MD (middle domain) around two flexible hinge regions. CONCLUSIONS: The present study shows, for the first time, the structure of the entire eukaryotic apo-Hsp90, along with its intrinsic flexibility. Although large structural rearrangements, leading to partial closure of the Hsp90 dimer, were previously attributed to the binding of nucleotides, our results reveal that they are in fact mainly due to the intrinsic flexibility of Hsp90 dimer. Taking into account the preponderant role of the dynamic nature of the structure of Hsp90, we reconsider the Hsp90 ATPase cycle.


Subject(s)
HSP90 Heat-Shock Proteins/chemistry , Adenosine Triphosphatases/chemistry , Adenosine Triphosphatases/ultrastructure , Animals , Crystallography, X-Ray , HSP90 Heat-Shock Proteins/ultrastructure , Microscopy, Electron , Models, Molecular , Protein Conformation , Protein Folding , Solutions , Swine
15.
Genes Cells ; 12(5): 611-22, 2007 May.
Article in English | MEDLINE | ID: mdl-17535252

ABSTRACT

N-WASP induces filopodial actin cytoskeleton through activation of the Arp2/3 complex. Here, we show that heat shock protein 90 (HSP90) regulates the structure of actin filaments induced by N-WASP and the Arp2/3 complex. HSP90 binds to N-WASP and to F-actin and bundles actin filaments. Bundling activity of HSP90 does not affect actin filament nucleation induced by N-WASP and the Arp2/3 complex. HSP90 is co-localized with N-WASP at branching points of actin filaments produced by the Arp2/3 complex and thereby bundles branched filaments; this bundled actin structure is inhibited by blocking direct binding between HSP90 and N-WASP. Furthermore, HSP90 converts branched actin filaments on N-WASP-coated beads to filopodia-like star-shaped bundles. These findings indicate that HSP90 promotes the formation of N-WASP/Arp2/3 complex-induced unbranched filopodial actin structures.


Subject(s)
Actin-Related Protein 2-3 Complex/metabolism , Actins/metabolism , HSP90 Heat-Shock Proteins/metabolism , Wiskott-Aldrich Syndrome Protein, Neuronal/metabolism , Actin-Related Protein 2-3 Complex/chemistry , Actins/chemistry , Actins/ultrastructure , Animals , Cattle , Cell Line , Cross-Linking Reagents , HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , In Vitro Techniques , Kinetics , Microscopy, Electron , Multiprotein Complexes , Protein Binding , Rabbits , Recombinant Proteins/chemistry , Recombinant Proteins/metabolism , Recombinant Proteins/ultrastructure , Wiskott-Aldrich Syndrome Protein, Neuronal/chemistry
16.
BMC Bioinformatics ; 8: 27, 2007 Jan 26.
Article in English | MEDLINE | ID: mdl-17257425

ABSTRACT

BACKGROUND: The need for fast and accurate scoring functions has been driven by the increased use of in silico virtual screening twinned with high-throughput screening as a method to rapidly identify potential candidates in the early stages of drug development. We examine the ability of some the most common scoring functions (GOLD, ChemScore, DOCK, PMF, BLEEP and Consensus) to discriminate correctly and efficiently between active and non-active compounds among a library of approximately 3,600 diverse decoy compounds in a virtual screening experiment against heat shock protein 90 (Hsp90). RESULTS: Firstly, we investigated two ranking methodologies, GOLDrank and BestScorerank. GOLDrank is based on ranks generated using GOLD. The various scoring functions, GOLD, ChemScore, DOCK, PMF, BLEEP and Consensus, are applied to the pose ranked number one by GOLD for that ligand. BestScorerank uses multiple poses for each ligand and independently chooses the best ranked pose of the ligand according to each different scoring function. Secondly, we considered the effect of introducing the Thr184 hydrogen bond tether to guide the docking process towards a particular solution, and its effect on enrichment. Thirdly, we considered normalisation to account for the known bias of scoring functions to select larger molecules. All the scoring functions gave fairly similar enrichments, with the exception of PMF which was consistently the poorest performer. In most cases, GOLD was marginally the best performing individual function; the Consensus score usually performed similarly to the best single scoring function. Our best results were obtained using the Thr184 tether in combination with the BestScorerank protocol and normalisation for molecular weight. For that particular combination, DOCK was the best individual function; DOCK recovered 90% of the actives in the top 10% of the ranked list; Consensus similarly recovered 89% of the actives in its top 10%. CONCLUSION: Overall, we demonstrate the validity of virtual screening as a method for identifying new leads from a pool of ligands with similar physicochemical properties and we believe that the outcome of this study provides useful insight into the setting up of a suitable docking and scoring protocol, resulting in enrichment of 'target active' compounds.


Subject(s)
Algorithms , Drug Design , HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , Models, Chemical , Models, Molecular , Sequence Analysis, Protein/methods , Binding Sites , Computer Simulation , Protein Binding , Protein Conformation , Protein Interaction Mapping/methods
17.
Mol Cell ; 23(5): 697-707, 2006 Sep 01.
Article in English | MEDLINE | ID: mdl-16949366

ABSTRACT

Activation of many protein kinases depends on their interaction with the Hsp90 molecular chaperone system. Recruitment of protein kinase clients to the Hsp90 chaperone system is mediated by the cochaperone adaptor protein Cdc37, which acts as a scaffold, simultaneously binding protein kinases and Hsp90. We have now expressed and purified an Hsp90-Cdc37-Cdk4 complex, defined its stoichiometry, and determined its 3D structure by single-particle electron microscopy. Comparison with the crystal structure of Hsp90 allows us to identify the locations of Cdc37 and Cdk4 in the complex and suggests a mechanism by which conformational changes in the kinase are coupled to the Hsp90 ATPase cycle.


Subject(s)
Cell Cycle Proteins/chemistry , Cell Cycle Proteins/ultrastructure , Chaperonins/chemistry , Chaperonins/ultrastructure , Cyclin-Dependent Kinase 4/chemistry , Cyclin-Dependent Kinase 4/ultrastructure , HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/ultrastructure , Cell Cycle Proteins/isolation & purification , Chaperonins/isolation & purification , Cyclin-Dependent Kinase 4/isolation & purification , HSP90 Heat-Shock Proteins/isolation & purification , Humans , Microscopy, Electron , Models, Molecular , Multiprotein Complexes/chemistry , Multiprotein Complexes/isolation & purification , Multiprotein Complexes/ultrastructure , Protein Binding
18.
J Biol Chem ; 281(44): 33182-91, 2006 Nov 03.
Article in English | MEDLINE | ID: mdl-16973602

ABSTRACT

Alzheimer disease is a neurological disorder that is characterized by the presence of fibrils and oligomers composed of the amyloid beta (Abeta) peptide. In models of Alzheimer disease, overexpression of molecular chaperones, specifically heat shock protein 70 (Hsp70), suppresses phenotypes related to Abeta aggregation. These observations led to the hypothesis that chaperones might interact with Abeta and block self-association. However, although biochemical evidence to support this model has been collected in other neurodegenerative systems, the interaction between chaperones and Abeta has not been similarly explored. Here, we examine the effects of Hsp70/40 and Hsp90 on Abeta aggregation in vitro. We found that recombinant Hsp70/40 and Hsp90 block Abeta self-assembly and that these chaperones are effective at substoichiometric concentrations (approximately 1:50). The anti-aggregation activity of Hsp70 can be inhibited by a nonhydrolyzable nucleotide analog and encouraged by pharmacological stimulation of its ATPase activity. Finally, we were interested in discerning what type of amyloid structures can be acted upon by these chaperones. To address this question, we added Hsp70/40 and Hsp90 to pre-formed oligomers and fibrils. Based on thioflavin T reactivity, the combination of Hsp70/40 and Hsp90 caused structural changes in oligomers but had little effect on fibrils. These results suggest that if these chaperones are present in the same cellular compartment in which Abeta is produced, Hsp70/40 and Hsp90 may suppress the early stages of self-assembly. Thus, these results are consistent with a model in which pharmacological activation of chaperones might have a favorable therapeutic effect on Alzheimer disease.


Subject(s)
Amyloid beta-Peptides/metabolism , HSP70 Heat-Shock Proteins/metabolism , HSP90 Heat-Shock Proteins/metabolism , Peptide Fragments/metabolism , Adenosine Triphosphatases/metabolism , Amyloid beta-Peptides/ultrastructure , HSP40 Heat-Shock Proteins/metabolism , HSP70 Heat-Shock Proteins/agonists , HSP70 Heat-Shock Proteins/ultrastructure , HSP90 Heat-Shock Proteins/genetics , HSP90 Heat-Shock Proteins/ultrastructure , Humans , Microscopy, Electron, Transmission , Peptide Fragments/ultrastructure , Protein Binding , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Time Factors
19.
Biochemistry ; 42(44): 12972-80, 2003 Nov 11.
Article in English | MEDLINE | ID: mdl-14596612

ABSTRACT

Hsp90 is a molecular chaperone that binds and assists refolding of non-native and/or labile polypeptides and also bind various peptides. However, the rules of how Hsp90 recognizes substrates have not been well characterized. By surface plasmon resonance measurements, a physiologically active peptide, neuropeptide Y (NPY), with a strong binding property to Hsp90 was identified from screening of 38 randomly selected peptide candidates. We showed that the carboxy-terminal fragment of NPY (NPY13-36), which forms an amphipathic alpha-helix structure, preserved the strong binding to Hsp90. Immunoprecipitation and immunoblotting using HeLa cell extracts revealed that newly synthesized NPY precursors bound to Hsp90, suggesting that the in vitro binding experiments identified an interactive peptide in vivo. Proteolytic cleavage of the NPY13-36/Hsp90 complex, as well as binding site analysis using deletion mutants of Hsp90, revealed the NPY binding locus on Hsp90alpha as the 192 amino acid region following the N-terminal domain. By electron microscopic analysis using an anti-Hsp90 antibody against the sequence proximal to the highly charged region, we showed that the Hsp90 dimer bound to NPY13-36 at both ends. Mutation of arginine residues in NPY13-36 to alanine abrogated binding to Hsp90. Our studies indicate that the hinge region after the N-terminal domain of Hsp90 and the positive charges on NPY are important for this interaction.


Subject(s)
HSP90 Heat-Shock Proteins/chemistry , HSP90 Heat-Shock Proteins/metabolism , Neuropeptide Y/chemistry , Neuropeptide Y/metabolism , Amino Acid Sequence , Animals , HSP90 Heat-Shock Proteins/genetics , HSP90 Heat-Shock Proteins/ultrastructure , HeLa Cells , Humans , Molecular Sequence Data , Peptide Fragments/chemistry , Peptide Fragments/isolation & purification , Peptide Fragments/metabolism , Peptide Fragments/ultrastructure , Protein Binding/genetics , Protein Precursors/chemistry , Protein Precursors/metabolism , Protein Precursors/ultrastructure , Protein Structure, Secondary , Protein Structure, Tertiary/genetics , Recombinant Fusion Proteins/chemistry , Recombinant Fusion Proteins/genetics , Recombinant Fusion Proteins/metabolism , Sequence Deletion , Static Electricity , Structure-Activity Relationship , Surface Plasmon Resonance , Swine , Transfection
20.
J Struct Biol ; 142(3): 379-91, 2003 Jun.
Article in English | MEDLINE | ID: mdl-12781665

ABSTRACT

A stress treatment of 32 degrees C for at least 8h was able to change the gametophytic program of the microspore, switching it to embryogenesis in Brassica napus, an interesting model for studying this process in vitro. After induction, some microspores started symmetric divisions and became haploid embryos after a few days, whereas other microspores, not sensitive to induction, followed their original gametophytic development. In this work the distribution and ultrastructural localization of two heat-shock proteins (Hsp70 and Hsp90) throughout key stages before and after embryogenesis induction were studied. Both Hsp proteins are rapidly induced, localizing in the nucleus and the cytoplasm. Immunogold labeling showed changes in the distribution patterns of these proteins, these changes being assessed by a quantitative analysis. Inside the nucleus, Hsp70 was found in association with RNP structures in the interchromatin region and in the nucleolus, whereas nuclear Hsp90 was mostly found in the interchromatin region. For Hsp70, the accumulation after the inductive treatment was accompanied by a reversible translocation from the cytoplasm to the nucleus, in both induced (embryogenic) and noninduced (gametophytic) microspores. However, the translocation was higher in embryogenic microspores, suggesting a possible additional role for Hsp70 in the switch to embryogenesis. In contrast, Hsp90 increase was similar in all microspores, occurring faster than for Hsp70 and suggesting a more specific role for Hsp90 in the stress response. Hsp70 and Hsp90 colocalized in clusters in the cytoplasm and the nucleus, but not in the nucleolus. Results indicated that stress proteins are involved in the process of microspore embryogenesis induction. The differential appearance and distribution of the two proteins and their association at specific stages have been determined between the two systems coexisting in the same culture: embryogenic development (induced cells) and development of gametes (noninduced cells).


Subject(s)
Brassica napus/physiology , HSP70 Heat-Shock Proteins/analysis , HSP70 Heat-Shock Proteins/ultrastructure , HSP90 Heat-Shock Proteins/analysis , HSP90 Heat-Shock Proteins/ultrastructure , Antibodies, Monoclonal , Brassica napus/ultrastructure , Freezing , Germination/physiology , HSP70 Heat-Shock Proteins/genetics , HSP90 Heat-Shock Proteins/genetics , Immunoblotting , Immunohistochemistry , Microscopy, Immunoelectron , Spores/physiology , Subcellular Fractions/ultrastructure
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