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1.
Sci Rep ; 14(1): 6577, 2024 03 19.
Article in English | MEDLINE | ID: mdl-38503809

ABSTRACT

The type IX secretion system (T9SS) is a large multi-protein transenvelope complex distributed into the Bacteroidetes phylum and responsible for the secretion of proteins involved in pathogenesis, carbohydrate utilization or gliding motility. In Porphyromonas gingivalis, the two-component system PorY sensor and response regulator PorX participate to T9SS gene regulation. Here, we present the crystal structure of PorXFj, the Flavobacterium johnsoniae PorX homolog. As for PorX, the PorXFj structure is comprised of a CheY-like N-terminal domain and an alkaline phosphatase-like C-terminal domain separated by a three-helix bundle central domain. While not activated and monomeric in solution, PorXFj crystallized as a dimer identical to active PorX. The CheY-like domain of PorXFj is in an active-like conformation, and PorXFj possesses phosphodiesterase activity, in agreement with the observation that the active site of its phosphatase-like domain is highly conserved with PorX.


Subject(s)
Bacterial Proteins , Flavobacterium , Bacterial Proteins/metabolism , Flavobacterium/metabolism , Bacteroidetes/metabolism , Motor Activity , Bacterial Secretion Systems/genetics , Porphyromonas gingivalis/metabolism
2.
Sci Adv ; 9(40): eadg6996, 2023 10 06.
Article in English | MEDLINE | ID: mdl-37792935

ABSTRACT

Secretins are outer membrane (OM) channels found in various bacterial nanomachines that secrete or assemble large extracellular structures. High-resolution 3D structures of type 2 secretion system (T2SS) secretins revealed bimodular channels with a C-module, holding a conserved central gate and an optional top gate, followed by an N-module for which multiple structural organizations have been proposed. Here, we perform a structure-driven in vivo study of the XcpD secretin, which validates one of the organizations of the N-module whose flexibility enables alternative conformations. We also show the existence of the central gate in vivo and its required flexibility, which is key for substrate passage and watertightness control. Last, functional, genomic, and phylogenetic analyses indicate that the optional top gate provides a gain of watertightness. Our data illustrate how the gating properties of T2SS secretins allow these large channels to overcome the duality between the necessity of preserving the OM impermeability while simultaneously promoting the secretion of large, folded effectors.


Subject(s)
Type II Secretion Systems , Type II Secretion Systems/chemistry , Type II Secretion Systems/metabolism , Secretin/metabolism , Phylogeny , Protein Binding , Bacterial Proteins/metabolism
3.
Int J Mol Sci ; 24(2)2023 Jan 16.
Article in English | MEDLINE | ID: mdl-36675258

ABSTRACT

The type VI secretion system (T6SS) delivers enzymatic effectors into target cells to destroy them. Cells of the same strain protect themselves against effectors with immunity proteins that specifically inhibit effectors. Here, we report the identification and characterization of a Tle3 phospholipase effector and its cognate immunity protein Tli3-an outer membrane lipoprotein from adherent-invasive Escherichia coli (AIEC). Enzymatic assays demonstrate that purified Tle3AIEC has a phospholipase A1, and not A2, activity and that its toxicity is neutralized by the cognate immunity protein Tli3AIEC. Tli3AIEC binds Tle3 in a 1:1 stoichiometric ratio. Tle3AIEC, Tli3AIEC and the Tle3AIEC-Tli3AIEC complex were purified and subjected to crystallization. The Tle3AIEC-Tli3AIEC complex structure could not be solved by SeMet phasing, but only by molecular replacement when using an AlphaFold2 prediction model. Tle3AIEC exhibits an α/ß-hydrolase fold decorated by two protruding segments, including a N-terminus loop. Tli3AIEC displays a new fold of three stacked ß-sheets and a protruding loop that inserts in Tle3AIECcatalytic crevice. We showed, experimentally, that Tle3AIEC interacts with the VgrG AIEC cargo protein and AlphaFold2 prediction of the VgrGAIEC-Tle3AIEC complex reveals a strong interaction between the VgrGAIEC C-terminus adaptor and Tle3AIEC N-terminal loop.


Subject(s)
Escherichia coli Infections , Type VI Secretion Systems , Humans , Escherichia coli/metabolism , Type VI Secretion Systems/metabolism , Bacterial Proteins/metabolism , Bacterial Adhesion , Co-Repressor Proteins/metabolism
4.
FEBS J ; 287(18): 4068-4081, 2020 09.
Article in English | MEDLINE | ID: mdl-31995266

ABSTRACT

Polymorphonuclear neutrophils contain at least four serine endopeptidases, namely neutrophil elastase (NE), proteinase 3 (PR3), cathepsin G (CatG), and NSP4, which contribute to the regulation of infection and of inflammatory processes. In physiological conditions, endogenous inhibitors including α2-macroglobulin (α2-M), serpins [α1-proteinase inhibitor (α1-PI)], monocyte neutrophil elastase inhibitor (MNEI), α1-antichymotrypsin, and locally produced chelonianins (elafin, SLPI) control excessive proteolytic activity of neutrophilic serine proteinases. In contrast to human NE (hNE), hPR3 is weakly inhibited by α1-PI and MNEI but not by SLPI. α2-M is a large spectrum inhibitor that traps a variety of proteinases in response to cleavage(s) in its bait region. We report here that α2-M was more rapidly processed by hNE than hPR3 or hCatG. This was confirmed by the observation that the association between α2-M and hPR3 is governed by a kass in the ≤ 105  m-1 ·s-1 range. Since α2-M-trapped proteinases retain peptidase activity, we first predicted the putative cleavage sites within the α2-M bait region (residues 690-728) using kinetic and molecular modeling approaches. We then identified by mass spectrum analysis the cleavage sites of hPR3 in a synthetic peptide spanning the 39-residue bait region of α2-M (39pep-α2-M). Since the 39pep-α2-M peptide and the corresponding bait area in the whole protein do not contain sequences with a high probability of specific cleavage by hPR3 and were indeed only slowly cleaved by hPR3, it can be concluded that α2-M is a poor inhibitor of hPR3. The resistance of hPR3 to inhibition by endogenous inhibitors explains at least in part its role in tissue injury during chronic inflammatory diseases and its well-recognized function of major target autoantigen in granulomatosis with polyangiitis.


Subject(s)
Molecular Docking Simulation , Myeloblastin/chemistry , Pregnancy-Associated alpha 2-Macroglobulins/chemistry , Recombinant Proteins/chemistry , Amino Acid Sequence , Binding Sites , Chromatography, Liquid/methods , Humans , Kinetics , Mass Spectrometry/methods , Myeloblastin/genetics , Myeloblastin/metabolism , Peptides/chemistry , Peptides/genetics , Peptides/metabolism , Pregnancy-Associated alpha 2-Macroglobulins/genetics , Pregnancy-Associated alpha 2-Macroglobulins/metabolism , Protein Binding , Protein Domains , Proteolysis , Recombinant Proteins/metabolism
5.
J Med Chem ; 61(5): 1858-1870, 2018 03 08.
Article in English | MEDLINE | ID: mdl-29442501

ABSTRACT

The neutrophilic serine protease proteinase 3 (PR3) is involved in inflammation and immune response and thus appears as a therapeutic target for a variety of infectious and inflammatory diseases. Here we combined kinetic and molecular docking studies to increase the potency of peptidyl-diphenyl phosphonate PR3 inhibitors. Occupancy of the S1 subsite of PR3 by a nVal residue and of the S4-S5 subsites by a biotinylated Val residue as obtained in biotin-VYDnVP(O-C6H4-4-Cl)2 enhanced the second-order inhibition constant kobs/[I] toward PR3 by more than 10 times ( kobs/[I] = 73000 ± 5000 M-1 s-1) as compared to the best phosphonate PR3 inhibitor previously reported. This inhibitor shows no significant inhibitory activity toward human neutrophil elastase and resists proteolytic degradation in sputa from cystic fibrosis patients. It also inhibits macaque PR3 but not the PR3 from rodents and can thus be used for in vivo assays in a primate model of inflammation.


Subject(s)
Myeloblastin/chemistry , Organophosphonates/antagonists & inhibitors , Animals , Binding Sites , Humans , Inflammation , Kinetics , Macaca , Models, Molecular , Molecular Docking Simulation , Protein Binding , Rodentia , Substrate Specificity
6.
Nat Commun ; 9(1): 429, 2018 01 30.
Article in English | MEDLINE | ID: mdl-29382829

ABSTRACT

Type IX secretion system (T9SS), exclusively present in the Bacteroidetes phylum, has been studied mainly in Flavobacterium johnsoniae and Porphyromonas gingivalis. Among the 18 genes, essential for T9SS function, a group of four, porK-N (P. gingivalis) or gldK-N (F. johnsoniae) belongs to a co-transcribed operon that expresses the T9SS core membrane complex. The central component of this complex, PorM (or GldM), is anchored in the inner membrane by a trans-membrane helix and interacts through the outer membrane PorK-N complex. There is a complete lack of available atomic structures for any component of T9SS, including the PorKLMN complex. Here we report the crystal structure of the GldM and PorM periplasmic domains. Dimeric GldM and PorM, each contain four domains of ~180-Å length that span most of the periplasmic space. These and previously reported results allow us to propose a model of the T9SS core membrane complex as well as its functional behavior.


Subject(s)
Bacterial Proteins/chemistry , Bacterial Secretion Systems/chemistry , Periplasm/chemistry , Animals , Camelids, New World , Escherichia coli , Flavobacterium , Porphyromonas gingivalis , Protein Conformation
7.
Nat Microbiol ; 2: 17103, 2017 Jun 26.
Article in English | MEDLINE | ID: mdl-28650463

ABSTRACT

The type VI secretion system (T6SS) is a multiprotein machine widespread in Gram-negative bacteria that delivers toxins into both eukaryotic and prokaryotic cells. The mechanism of action of the T6SS is comparable to that of contractile myophages. The T6SS builds a tail-like structure made of an inner tube wrapped by a sheath, assembled under an extended conformation. Contraction of the sheath propels the inner tube towards the target cell. The T6SS tail is assembled on a platform-the baseplate-which is functionally similar to bacteriophage baseplates. In addition, the baseplate docks the tail to a trans-envelope membrane complex that orients the tail towards the target. Here, we report the crystal structure of TssK, a central component of the T6SS baseplate. We show that TssK is composed of three domains, and establish the contribution of each domain to the interaction with TssK partners. Importantly, this study reveals that the N-terminal domain of TssK is structurally homologous to the shoulder domain of phage receptor-binding proteins, and the C-terminal domain binds the membrane complex. We propose that TssK has conserved the domain of attachment to the virion particle but has evolved the reception domain to use the T6SS membrane complex as receptor.


Subject(s)
Bacteriophages/chemistry , Escherichia coli/chemistry , Type VI Secretion Systems/chemistry , Viral Proteins/chemistry , Bacteriophages/genetics , Bacteriophages/metabolism , Crystallization , Crystallography, X-Ray , Escherichia coli/metabolism , Membrane Proteins/metabolism , Models, Molecular , Protein Binding , Protein Domains , Protein Multimerization , Protein Transport , Receptors, Virus/metabolism , Type VI Secretion Systems/genetics , Type VI Secretion Systems/metabolism , Viral Proteins/genetics , Viral Proteins/metabolism
8.
Acta Crystallogr F Struct Biol Commun ; 73(Pt 5): 286-293, 2017 05 01.
Article in English | MEDLINE | ID: mdl-28471361

ABSTRACT

PorM is a membrane protein that is involved in the assembly of the type IX secretion system (T9SS) in Porphyromonas gingivalis, a major bacterial pathogen that is responsible for periodontal disease in humans. In the context of structural studies of PorM to better understand T9SS assembly, four camelid nanobodies were selected, produced and purified, and their specific interaction with the N-terminal or C-terminal part of the periplasmic domain of PorM was investigated. Diffracting crystals were also obtained, and the structures of the four nanobodies were solved by molecular replacement. Furthermore, two nanobodies were used as crystallization chaperones and turned out to be valuable tools in the structure-determination process of the periplasmic domain of PorM.


Subject(s)
Bacterial Proteins/chemistry , Molecular Chaperones/chemistry , Porphyromonas gingivalis/chemistry , Single-Domain Antibodies/chemistry , Amino Acid Sequence , Animals , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Bacterial Secretion Systems/genetics , Bacterial Secretion Systems/metabolism , Binding Sites , Camelids, New World/immunology , Camelus/immunology , Cloning, Molecular , Crystallization , Crystallography, X-Ray , Escherichia coli/genetics , Escherichia coli/metabolism , Gene Expression , Genetic Vectors/chemistry , Genetic Vectors/metabolism , Kinetics , Models, Molecular , Molecular Chaperones/biosynthesis , Molecular Chaperones/isolation & purification , Peptide Library , Porphyromonas gingivalis/metabolism , Protein Binding , Protein Conformation, alpha-Helical , Protein Conformation, beta-Strand , Protein Interaction Domains and Motifs , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Sequence Alignment , Sequence Homology, Amino Acid , Single-Domain Antibodies/biosynthesis , Single-Domain Antibodies/isolation & purification , Thermodynamics
9.
J Biol Chem ; 292(8): 3252-3261, 2017 02 24.
Article in English | MEDLINE | ID: mdl-28057754

ABSTRACT

The transport of proteins at the cell surface of Bacteroidetes depends on a secretory apparatus known as type IX secretion system (T9SS). This machine is responsible for the cell surface exposition of various proteins, such as adhesins, required for gliding motility in Flavobacterium, S-layer components in Tannerella forsythia, and tooth tissue-degrading enzymes in the oral pathogen Porphyromonas gingivalis Although a number of subunits of the T9SS have been identified, we lack details on the architecture of this secretion apparatus. Here we provide evidence that five of the genes encoding the core complex of the T9SS are co-transcribed and that the gene products are distributed in the cell envelope. Protein-protein interaction studies then revealed that these proteins oligomerize and interact through a dense network of contacts.


Subject(s)
Bacterial Proteins/metabolism , Bacterial Secretion Systems/metabolism , Porphyromonas gingivalis/metabolism , Bacterial Proteins/analysis , Bacterial Proteins/genetics , Bacterial Secretion Systems/analysis , Bacterial Secretion Systems/genetics , Bacteroidaceae Infections/microbiology , Crystallography, X-Ray , Genes, Bacterial , Humans , Porphyromonas gingivalis/chemistry , Porphyromonas gingivalis/genetics , Protein Interaction Maps , Protein Subunits/analysis , Protein Subunits/genetics , Protein Subunits/metabolism
10.
J Allergy Clin Immunol ; 140(3): 759-770.e13, 2017 Sep.
Article in English | MEDLINE | ID: mdl-27965111

ABSTRACT

BACKGROUND: Eligibility to immunotherapy is based on the determination of IgE reactivity to a specific allergen by means of skin prick or in vitro testing. Biomarkers predicting the likelihood of clinical improvement during immunotherapy would significantly improve patient selection. METHODS: Proteins were differentially assessed by using 2-dimensional differential gel electrophoresis and label-free mass spectrometry in pretreatment sera obtained from clinical responders and nonresponders within a cohort of 82 patients with grass pollen allergy receiving sublingual immunotherapy or placebo. Functional studies of Fetuin-A (FetA) were conducted by using gene silencing in a mouse asthma model, human dendritic cell in vitro stimulation assays, and surface plasmon resonance. RESULTS: Analysis by using quantitative proteomics of pretreatment sera from patients with grass pollen allergy reveals that high levels of O-glycosylated sialylated FetA isoforms are found in patients exhibiting a strong decrease in rhinoconjunctivitis symptoms after sublingual immunotherapy. Although FetA is involved in numerous inflammatory conditions, its potential role in allergy is unknown. In vivo silencing of the FETUA gene in BALB/c mice results in a dramatic upregulation of airway hyperresponsiveness, lung resistance, and TH2 responses after allergic sensitization to ovalbumin. Both sialylated and nonsialytated FetA bind to LPS, but only the former synergizes with LPS and grass pollen or mite allergens to enhance the Toll-like receptor 4-mediated proallergic properties of human dendritic cells. CONCLUSIONS: As a reflection of the patient's inflammatory status, pretreatment levels of sialylated FetA in the blood are indicative of the likelihood of clinical responses during grass pollen immunotherapy.


Subject(s)
Allergens/immunology , Poaceae/immunology , Pollen/immunology , Rhinitis, Allergic, Seasonal/blood , Rhinitis, Allergic, Seasonal/therapy , Sublingual Immunotherapy , alpha-2-HS-Glycoprotein/analysis , Animals , Biomarkers/blood , Dendritic Cells/drug effects , Dendritic Cells/immunology , Double-Blind Method , Gene Silencing , Humans , Lipopolysaccharides , Mice, Inbred BALB C , Ovalbumin/immunology , alpha-2-HS-Glycoprotein/genetics
11.
Pharmacol Rev ; 68(3): 603-30, 2016 07.
Article in English | MEDLINE | ID: mdl-27329045

ABSTRACT

Proteinase 3 (PR3) has received great scientific attention after its identification as the essential antigenic target of antineutrophil cytoplasm antibodies in Wegener's granulomatosis (now called granulomatosis with polyangiitis). Despite many structural and functional similarities between neutrophil elastase (NE) and PR3 during biosynthesis, storage, and extracellular release, unique properties and pathobiological functions have emerged from detailed studies in recent years. The development of highly sensitive substrates and inhibitors of human PR3 and the creation of PR3-selective single knockout mice led to the identification of nonredundant roles of PR3 in cell death induction via procaspase-3 activation in cell cultures and in mouse models. According to a study in knockout mice, PR3 shortens the lifespan of infiltrating neutrophils in tissues and accelerates the clearance of aged neutrophils in mice. Membrane exposure of active human PR3 on apoptotic neutrophils reprograms the response of macrophages to phagocytosed neutrophils, triggers secretion of proinflammatory cytokines, and undermines immune silencing and tissue regeneration. PR3-induced disruption of the anti-inflammatory effect of efferocytosis may be relevant for not only granulomatosis with polyangiitis but also for other autoimmune diseases with high neutrophil turnover. Inhibition of membrane-bound PR3 by endogenous inhibitors such as the α-1-protease inhibitor is comparatively weaker than that of NE, suggesting that the adverse effects of unopposed PR3 activity resurface earlier than those of NE in individuals with α-1-protease inhibitor deficiency. Effective coverage of PR3 by anti-inflammatory tools and simultaneous inhibition of both PR3 and NE should be most promising in the future.


Subject(s)
Anti-Inflammatory Agents/pharmacology , Immunoglobulin Fragments/pharmacology , Immunoglobulin Fragments/therapeutic use , Myeloblastin/antagonists & inhibitors , Neutrophils/enzymology , Protease Inhibitors/pharmacology , Protease Inhibitors/therapeutic use , Animals , Anti-Inflammatory Agents/therapeutic use , Apoptosis/drug effects , Humans , Inflammation/drug therapy , Inflammation/enzymology , Molecular Targeted Therapy , Myeloblastin/metabolism , Neutrophils/drug effects , Neutrophils/physiology
12.
mBio ; 7(1): e01781-15, 2016 Jan 26.
Article in English | MEDLINE | ID: mdl-26814179

ABSTRACT

UNLABELLED: The Gram-positive bacterium Lactococcus lactis, used for the production of cheeses and other fermented dairy products, falls victim frequently to fortuitous infection by tailed phages. The accompanying risk of dairy fermentation failures in industrial facilities has prompted in-depth investigations of these phages. Lactococcal phage Tuc2009 possesses extensive genomic homology to phage TP901-1. However, striking differences in the baseplate-encoding genes stimulated our interest in solving the structure of this host's adhesion device. We report here the X-ray structures of phage Tuc2009 receptor binding protein (RBP) and of a "tripod" assembly of three baseplate components, BppU, BppA, and BppL (the RBP). These structures made it possible to generate a realistic atomic model of the complete Tuc2009 baseplate that consists of an 84-protein complex: 18 BppU, 12 BppA, and 54 BppL proteins. The RBP head domain possesses a different fold than those of phages p2, TP901-1, and 1358, while the so-called "stem" and "neck" domains share structural features with their equivalents in phage TP901-1. The BppA module interacts strongly with the BppU N-terminal domain. Unlike other characterized lactococcal phages, Tuc2009 baseplate harbors two different carbohydrate recognition sites: one in the bona fide RBP head domain and the other in BppA. These findings represent a major step forward in deciphering the molecular mechanism by which Tuc2009 recognizes its saccharidic receptor(s) on its host. IMPORTANCE: Understanding how siphophages infect Lactococcus lactis is of commercial importance as they cause milk fermentation failures in the dairy industry. In addition, such knowledge is crucial in a general sense in order to understand how viruses recognize their host through protein-glycan interactions. We report here the lactococcal phage Tuc2009 receptor binding protein (RBP) structure as well as that of its baseplate. The RBP head domain has a different fold than those of phages p2, TP901-1, and 1358, while the so-called "stem" and "neck" share the fold characteristics also found in the equivalent baseplate proteins of phage TP901-1. The baseplate structure contains, in contrast to other characterized lactococcal phages, two different carbohydrate binding modules that may bind different motifs of the host's surface polysaccharide.


Subject(s)
Bacteriophages/chemistry , Carbohydrate Metabolism , Lactococcus lactis/virology , Viral Tail Proteins/chemistry , Viral Tail Proteins/metabolism , Binding Sites , Crystallography, X-Ray , Models, Molecular , Multiprotein Complexes/chemistry , Protein Binding , Protein Conformation , Siphoviridae/chemistry
13.
Proc Natl Acad Sci U S A ; 113(3): 698-703, 2016 Jan 19.
Article in English | MEDLINE | ID: mdl-26739560

ABSTRACT

Viruses are obligatory intracellular parasites that suffer strong evolutionary pressure from the host immune system. Rapidly evolving viral genomes can adapt to this pressure by acquiring genes that counteract host defense mechanisms. For example, many vertebrate DNA viruses have hijacked cellular genes encoding cytokines or cytokine receptors to disrupt host cell communication. Insect viruses express suppressors of RNA interference or apoptosis, highlighting the importance of these cell intrinsic antiviral mechanisms in invertebrates. Here, we report the identification and characterization of a family of proteins encoded by insect DNA viruses that are homologous to a 12-kDa circulating protein encoded by the virus-induced Drosophila gene diedel (die). We show that die mutant flies have shortened lifespan and succumb more rapidly than controls when infected with Sindbis virus. This reduced viability is associated with deregulated activation of the immune deficiency (IMD) pathway of host defense and can be rescued by mutations in the genes encoding the homolog of IKKγ or IMD itself. Our results reveal an endogenous pathway that is exploited by insect viruses to modulate NF-κB signaling and promote fly survival during the antiviral response.


Subject(s)
Cytokines/chemistry , Cytokines/metabolism , Drosophila Proteins/chemistry , Drosophila Proteins/metabolism , Drosophila melanogaster/immunology , Drosophila melanogaster/metabolism , Immunity , Sequence Homology, Amino Acid , Signal Transduction , Alphavirus Infections/genetics , Amino Acid Sequence , Animals , Cytokines/genetics , Drosophila Proteins/genetics , Drosophila melanogaster/genetics , Drosophila melanogaster/virology , Immunity/genetics , Molecular Sequence Data , Mutation/genetics , Sindbis Virus , Survival Analysis , Up-Regulation/genetics
14.
J Innate Immun ; 8(1): 67-80, 2016.
Article in English | MEDLINE | ID: mdl-26513145

ABSTRACT

In Drosophila, peptidoglycan (PGN) is detected by PGN recognition proteins (PGRPs) that act as pattern recognition receptors. Some PGRPs such as PGRP-LB or PGRP-SCs are able to cleave PGN, therefore reducing the amount of immune elicitors and dampening immune deficiency (IMD) pathway activation. The precise role of PGRP-SC is less well defined because the PGRP-SC genes (PGRP-SC1a, PGRP-SC1b and PGRP-SC2) lie very close on the chromosome and have been studied using a deletion encompassing the three genes. By generating PGRP-SC-specific mutants, we reevaluated the roles of PGRP-LB, PGRP-SC1 and PGRP-SC2, respectively, during immune responses. We showed that these genes are expressed in different gut domains and that they follow distinct transcriptional regulation. Loss-of-function mutant analysis indicates that PGRP-LB is playing a major role in IMD pathway activation and bacterial load regulation in the gut, although PGRP-SCs are expressed at high levels in this organ. We also demonstrated that PGRP-SC2 is the main negative regulator of IMD pathway activation in the fat body. Accordingly, we showed that mutants for either PGRP-LB or PGRP-SC2 displayed a distinct susceptibility to bacteria depending on the infection route. Lastly, we demonstrated that PGRP-SC1 and PGRP-SC2 are required in vivo for full Toll pathway activation by Gram-positive bacteria.


Subject(s)
Carrier Proteins/immunology , Drosophila Proteins/immunology , Drosophila melanogaster/immunology , Immunity, Innate , NF-kappa B/metabolism , Receptors, Pattern Recognition/immunology , Animals , Bacterial Load/immunology , Carrier Proteins/genetics , Carrier Proteins/metabolism , Drosophila Proteins/genetics , Drosophila Proteins/metabolism , Drosophila melanogaster/genetics , Drosophila melanogaster/microbiology , Fat Body/immunology , Fat Body/metabolism , Gene Expression Regulation , Gene Knockout Techniques , Gram-Positive Bacteria/immunology , Intestinal Mucosa/metabolism , Intestines/immunology , Organ Specificity , Peptidoglycan/metabolism , Receptors, Pattern Recognition/genetics , Receptors, Pattern Recognition/metabolism , Signal Transduction
15.
Mol Microbiol ; 99(6): 1099-118, 2016 Mar.
Article in English | MEDLINE | ID: mdl-26714038

ABSTRACT

The Type VI secretion system (T6SS) is a multiprotein machine that delivers protein effectors in both prokaryotic and eukaryotic cells, allowing interbacterial competition and virulence. The mechanism of action of the T6SS requires the contraction of a sheath-like structure that propels a needle towards target cells, allowing the delivery of protein effectors. Here, we provide evidence that the entero-aggregative Escherichia coli Sci-1 T6SS is required to eliminate competitor bacteria. We further identify Tle1, a toxin effector encoded by this cluster and showed that Tle1 possesses phospholipase A1 and A2 activities required for the interbacterial competition. Self-protection of the attacker cell is secured by an outer membrane lipoprotein, Tli1, which binds Tle1 in a 1:1 stoichiometric ratio with nanomolar affinity, and inhibits its phospholipase activity. Tle1 is delivered into the periplasm of the prey cells using the VgrG1 needle spike protein as carrier. Further analyses demonstrate that the C-terminal extension domain of VgrG1, including a transthyretin-like domain, is responsible for the interaction with Tle1 and its subsequent delivery into target cells. Based on these results, we propose an additional mechanism of transport of T6SS effectors in which cognate effectors are selected by specific motifs located at the C-terminus of VgrG proteins.


Subject(s)
Escherichia coli/metabolism , Phospholipases A1/metabolism , Type VI Secretion Systems/metabolism , Animals , Bacterial Proteins/metabolism , Bacterial Toxins/genetics , Bacterial Toxins/metabolism , Caenorhabditis elegans , Escherichia coli/pathogenicity , Models, Molecular , Multigene Family , Phospholipases A1/chemistry , Phospholipases A1/genetics , Protein Domains , Type VI Secretion Systems/genetics , Virulence
16.
J Biol Chem ; 290(21): 13191-201, 2015 May 22.
Article in English | MEDLINE | ID: mdl-25847242

ABSTRACT

ß-Barrel pore-forming toxins (ß-PFT), a large family of bacterial toxins, are generally secreted as water-soluble monomers and can form oligomeric pores in membranes following proteolytic cleavage and interaction with cell surface receptors. Monalysin has been recently identified as a ß-PFT that contributes to the virulence of Pseudomonas entomophila against Drosophila. It is secreted as a pro-protein that becomes active upon cleavage. Here we report the crystal and cryo-electron microscopy structure of the pro-form of Monalysin as well as the crystal structures of the cleaved form and of an inactive mutant lacking the membrane-spanning region. The overall structure of Monalysin displays an elongated shape, which resembles those of ß-pore-forming toxins, such as Aerolysin, but is devoid of a receptor-binding domain. X-ray crystallography, cryo-electron microscopy, and light-scattering studies show that pro-Monalysin forms a stable doughnut-like 18-mer complex composed of two disk-shaped nonamers held together by N-terminal swapping of the pro-peptides. This observation is in contrast with the monomeric pro-form of the other ß-PFTs that are receptor-dependent for membrane interaction. The membrane-spanning region of pro-Monalysin is fully buried in the center of the doughnut, suggesting that upon cleavage of pro-peptides, the two disk-shaped nonamers can, and have to, dissociate to leave the transmembrane segments free to deploy and lead to pore formation. In contrast with other toxins, the delivery of 18 subunits at once, nearby the cell surface, may be used to bypass the requirement of receptor-dependent concentration to reach the threshold for oligomerization into the pore-forming complex.


Subject(s)
Bacterial Toxins/chemistry , Cryoelectron Microscopy/methods , Pore Forming Cytotoxic Proteins/chemistry , Pseudomonas/metabolism , Amino Acid Sequence , Bacterial Toxins/genetics , Bacterial Toxins/metabolism , Cell Membrane , Crystallization , Crystallography, X-Ray , Models, Molecular , Molecular Sequence Data , Mutation/genetics , Pore Forming Cytotoxic Proteins/genetics , Pore Forming Cytotoxic Proteins/metabolism , Protein Binding , Protein Multimerization , Protein Structure, Tertiary , Pseudomonas/genetics , Pseudomonas/growth & development , Sequence Homology, Amino Acid
17.
Acta Crystallogr F Struct Biol Commun ; 71(Pt 3): 266-71, 2015 Mar.
Article in English | MEDLINE | ID: mdl-25760699

ABSTRACT

The type VI secretion system (T6SS) is a machine evolved by Gram-negative bacteria to deliver toxin effectors into target bacterial or eukaryotic cells. The T6SS is functionally and structurally similar to the contractile tail of the Myoviridae family of bacteriophages and can be viewed as a syringe anchored to the bacterial membrane by a transenvelope complex. The membrane complex is composed of three proteins: the TssM and TssL inner membrane components and the TssJ outer membrane lipoprotein. The TssM protein is central as it interacts with both TssL and TssJ, therefore linking the membranes. Using controlled trypsinolysis, a 32.4 kDa C-terminal fragment of enteroaggregative Escherichia coli TssM (TssM32Ct) was purified. A nanobody obtained from llama immunization, nb25, exhibited subnanomolar affinity for TssM32Ct. Crystals of the TssM32Ct-nb25 complex were obtained and diffracted to 1.9 Šresolution. The crystals belonged to space group P64, with unit-cell parameters a = b = 95.23, c = 172.95 Å. Molecular replacement with a model nanobody indicated the presence of a dimer of TssM32Ct-nb25 in the asymmetric unit.


Subject(s)
Escherichia coli Proteins/chemistry , Escherichia coli/chemistry , Membrane Proteins/chemistry , Single-Domain Antibodies/chemistry , Amino Acid Sequence , Animals , Bacterial Secretion Systems/chemistry , Camelids, New World , Crystallization , Crystallography, X-Ray , Escherichia coli/metabolism , Escherichia coli Proteins/biosynthesis , Membrane Proteins/biosynthesis , Molecular Sequence Data , Peptide Fragments/chemistry
18.
PLoS One ; 10(3): e0122187, 2015.
Article in English | MEDLINE | ID: mdl-25811612

ABSTRACT

The type VI secretion system (T6SS) is a secretion pathway widespread in Gram-negative bacteria that targets toxins in both prokaryotic and eukaryotic cells. Although most T6SSs identified so far are involved in inter-bacterial competition, a few are directly required for full virulence of pathogens. The T6SS comprises 13 core proteins that assemble a large complex structurally and functionally similar to a phage contractile tail structure anchored to the cell envelope by a trans-membrane spanning stator. The central part of this stator, TssM, is a 1129-amino-acid protein anchored in the inner membrane that binds to the TssJ outer membrane lipoprotein. In this study, we have raised camelid antibodies against the purified TssM periplasmic domain. We report the crystal structure of two specific nanobodies that bind to TssM in the nanomolar range. Interestingly, the most potent nanobody, nb25, competes with the TssJ lipoprotein for TssM binding in vitro suggesting that TssJ and the nb25 CDR3 loop share the same TssM binding site or causes a steric hindrance preventing TssM-TssJ complex formation. Indeed, periplasmic production of the nanobodies displacing the TssM-TssJ interaction inhibits the T6SS function in vivo. This study illustrates the power of nanobodies to specifically target and inhibit bacterial secretion systems.


Subject(s)
Single-Domain Antibodies/pharmacology , Type VI Secretion Systems/antagonists & inhibitors , Amino Acid Sequence , Animals , Antibody Affinity , Antibody Specificity/immunology , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Camelids, New World , Models, Molecular , Molecular Sequence Data , Protein Binding , Protein Conformation , Sequence Alignment , Single-Domain Antibodies/chemistry , Single-Domain Antibodies/immunology , Thermodynamics , Type VI Secretion Systems/immunology
19.
J Biol Chem ; 289(46): 31777-31791, 2014 Nov 14.
Article in English | MEDLINE | ID: mdl-25288799

ABSTRACT

The function of neutrophil protease 3 (PR3) is poorly understood despite of its role in autoimmune vasculitides and its possible involvement in cell apoptosis. This makes it different from its structural homologue neutrophil elastase (HNE). Endogenous inhibitors of human neutrophil serine proteases preferentially inhibit HNE and to a lesser extent, PR3. We constructed a single-residue mutant PR3 (I217R) to investigate the S4 subsite preferences of PR3 and HNE and used the best peptide substrate sequences to develop selective phosphonate inhibitors with the structure Ac-peptidyl(P)(O-C6H4-4-Cl)2. The combination of a prolyl residue at P4 and an aspartyl residue at P2 was totally selective for PR3. We then synthesized N-terminally biotinylated peptidyl phosphonates to identify the PR3 in complex biological samples. These inhibitors resisted proteolytic degradation and rapidly inactivated PR3 in biological fluids such as inflammatory lung secretions and the urine of patients with bladder cancer. One of these inhibitors revealed intracellular PR3 in permeabilized neutrophils and on the surface of activated cells. They hardly inhibited PR3 bound to the surface of stimulated neutrophils despite their low molecular mass, suggesting that the conformation and reactivity of membrane-bound PR3 is altered. This finding is relevant for autoantibody binding and the subsequent activation of neutrophils in granulomatosis with polyangiitis (formerly Wegener disease). These are the first inhibitors that can be used as probes to monitor, detect, and control PR3 activity in a variety of inflammatory diseases.


Subject(s)
Esters/chemistry , Gene Expression Regulation, Enzymologic/drug effects , Myeloblastin/antagonists & inhibitors , Myeloblastin/chemistry , Oligopeptides/chemistry , Organophosphonates/chemistry , Animals , Apoptosis , Biotinylation , Cell Line , Cell Membrane/metabolism , Humans , Hydrolysis , Inflammation , Insecta , Mass Spectrometry , Models, Chemical , Mutation , Neutrophil Activation , Neutrophils/drug effects , Peptides/chemistry , Proline/chemistry , Protease Inhibitors/chemistry , Solvents
20.
Article in English | MEDLINE | ID: mdl-23908046

ABSTRACT

Monalysin was recently described as a novel pore-forming toxin (PFT) secreted by the Drosophila pathogen Pseudomonas entomophila. Recombinant monalysin is multimeric in solution, whereas PFTs are supposed to be monomeric until target membrane association. Monalysin crystals were obtained by the hanging-drop vapour-diffusion method using PEG 8000 as precipitant. Preliminary X-ray diffraction analysis revealed that monalysin crystals belonged to the monoclinic space group C2, with unit-cell parameters a = 162.4, b = 146.2, c = 144.4 Å, ß = 122.8°, and diffracted to 2.85 Å resolution using synchrotron radiation. Patterson self-rotation analysis and Matthews coefficient calculation indicate that the asymmetric unit contains nine copies of monalysin. Heavy-atom derivative data were collected and a Ta6Br14 cluster derivative data set confirmed the presence of ninefold noncrystallographic symmetry.


Subject(s)
Bacterial Toxins/chemistry , Pore Forming Cytotoxic Proteins/chemistry , Pseudomonas , Bacterial Toxins/isolation & purification , Crystallization , Crystallography, X-Ray , Pore Forming Cytotoxic Proteins/isolation & purification
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