Pleckstrin homology (PH) domains are small protein modules known for their ability to bind phosphoinositides and to drive membrane recruitment of their host proteins. We investigated phosphoinositide binding (in vitro and in vivo) and subcellular localization, and we modeled the electrostatic properties for all 33 PH domains encoded in the S. cerevisiae genome. Only one PH domain (from Num1p) binds phosphoinositides with high affinity and specificity. Six bind phosphoinositides with moderate affinity and little specificity and are membrane targeted in a phosphoinositide-dependent manner. Although all of the remaining 26 yeast PH domains bind phosphoinositides very weakly or not at all, three were nonetheless efficiently membrane targeted. Our proteome-wide analysis argues that membrane targeting is important for only approximately 30% of yeast PH domains and is defined by binding to both phosphoinositides and other targets. These findings have significant implications for understanding the function of proteins that contain this common domain.

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SummarySignature-tagged transposon mutagenesis of Salmonella with differential recovery from wild-type and immunodeficient mice revealed that the gene here named cdgR [for c-diguanylate (c-diGMP) regulator ] is required for the bacterium to resist host phagocyte oxidase in vivo . CdgR consists solely of a glutamatealanine-leucine (EAL) domain, a predicted cyclic diGMP (c-diGMP) phosphodiesterase. Disruption of cdgR decreased bacterial resistance to hydrogen peroxide and accelerated bacterial killing of macrophages. An ultrasensitive assay revealed c-diGMP in wild-type Salmonella with increased levels in the CdgR-deficient mutant. Thus, besides its known role in regulating cellulose synthesis and biofilm formation, bacterial c-diGMP also regulates host-pathogen interactions involving antioxidant defence and cytotoxicity.

Mammalian phospholipases D (PLD), which catalyze the hydrolysis of phosphatidylcholine to phosphatidic acid (PA), have been implicated in various cell signaling and vesicle trafficking processes. Mammalian PLD1 contains two different membrane-targeting domains, pleckstrin homology and Phox homology (PX) domains, but the precise roles of these domains in the membrane binding and activation of PLD1 are still unclear. To elucidate the role of the PX domain in PLD1 activation, we constructed a structural model of the PX domain by homology modeling and measured the membrane binding of this domain and selected mutants by surface plasmon resonance analysis. The PLD1 PX domain was found to have high phosphoinositide specificity, i.e. phosphatidylinositol 3,4,5-trisphosphate (PtdIns-(3,4,5)P 3 ) > > phosphatidylinositol 3-phosphate > phosphatidylinositol 5-phosphate > > other phosphoinositides. The PtdIns(3,4,5)P 3 binding was facilitated by the cationic residues (Lys 119 , Lys 121 , and Arg 179 ) in the putative binding pocket. Consistent with the model structure that suggests the presence of a second lipid-binding pocket, vesicle binding studies indicated that the PLD1 PX domain could also bind with moderate affinity to PA, phosphatidylserine, and other anionic lipids, which were mediated by a cluster of cationic residues in the secondary binding site. Simultaneous occupancy of both binding pockets synergistically increases membrane affinity of the PX domain. Electrostatic potential calculations suggest that a highly positive potential near the secondary binding site may facilitate the initial adsorption of the domain to the anionic membrane, which is followed by the binding of PtdIns(3,4,5)P 3 to its binding pocket. Collectively, our results suggest that the interaction of the PLD1 PX domain with PtdIns(3,4,5)P 3 and/or PA (or phosphatidylserine) may be an important factor in the spatiotemporal regulation and activation of PLD1. Mammalian phospholipase D (PLD)1 catalyzes the hydrolysis of phosphatidylcholine to generate phosphatidic acid (PA) and choline (1, 2). PA may act as a lipid mediator for various proteins involved in cell signaling and vesicle trafficking (3, 4) and may also regulate the physical property of the cellular membranes (5, 6). Two isoforms of mammalian PLDs, PLD1 and PLD2, have been implicated in numerous cellular processes, including vesicle trafficking, cytoskeletal rearrangement, and proliferation (1,3,4,7,8). PLDs are activated in many cell types in response to growth factors, hormones, and neurotransmitters (9). It has been reported that PLD activities are regulated through interactions with a wide variety of molecules, including small GTP-binding proteins, such as ADPribosylation factor (Arf), Rho, Rac, and Cdc42, and protein kinase C isoforms (10 -16).In most mammalian cells, PLD activities have been found associated with the membrane fraction but PLDs show complex membrane localization patterns depending on cell types. While PLD2 is mainly found at the plasma membrane (17), PLD1 shows dynam...

Microbial pathogens have evolved sophisticated mechanisms for evasion of host innate and adaptive immunities. PFam54 is the largest paralogous gene family in the genomes of Borrelia burgdorferi, the Lyme disease bacterium. One member of PFam54, the complement-regulator acquiring surface proteins 1 (BbCRASP-1), is able to abort the alternative pathway of complement activation via binding human complement regulator factor H (FH). The gene coding for BbCRASP-1 exists in a tandem array of PFam54 genes in the B. burgdorferi genome, a result apparently of repeated gene duplications. To help elucidate the functions of the large number of PFam54 genes, we performed §Corresponding

Phthiocerol dimycocerosates (PDIMs) and phenolic glycolipids (PGLs) are structurally related lipids noncovalently bound to the outer cell wall layer of Mycobacterium tuberculosis, Mycobacterium leprae, and several opportunistic mycobacterial human pathogens. PDIMs and PGLs are important effectors of virulence. Elucidation of the biosynthesis of these complex lipids will not only expand our understanding of mycobacterial cell wall biosynthesis, but it may also illuminate potential routes to novel therapeutics against mycobacterial infections. We report the construction of an in-frame deletion mutant of tesA (encoding a type II thioesterase) in the opportunistic human pathogen Mycobacterium marinum and the characterization of this mutant and its corresponding complemented strain control in terms of PDIM and PGL production. The growth and antibiotic susceptibility of these strains were also probed and compared with the parental wild-type strain. We show that deletion of tesA leads to a mutant that produces only traces of PDIMs and PGLs, has a slight growth yield increase and displays a substantial hypersusceptibility to several antibiotics. We also provide a robust model for the three-dimensional structure of M. marinum TesA (TesAmm) and demonstrate that a Ser-to-Ala substitution in the predicted catalytic Ser of TesAmm renders a mutant that recapitulates the phenotype of the tesA deletion mutant. Overall, our studies demonstrate a critical role for tesA in mycobacterial biology, advance our understanding of the biosynthesis of an important group of polyketide synthase-derived mycobacterial lipids, and suggest that drugs aimed at blocking PDIM and/or PGL production might synergize with antibiotic therapy in the control of mycobacterial infections. Mycobacterium tuberculosis (Mtb),3 Mycobacterium leprae, and several opportunistic mycobacterial human pathogens (e.g. M. marinum (Mm)) produce two related groups of diesters of ␤-glycol-containing aliphatic polyketides (e.g. phenolphthiocerols and phthiocerols) and polyketide synthase-derived multimethyl-branched fatty acids (e.g. mycocerosic acids) (Fig. 1). One of these groups is represented by phthiocerol dimycocerosates (PDIMs). The other group is represented by phenolphthiocerol dimycocerosates, which are glycosylated compounds generally known as phenolic glycolipids (PGLs). These complex lipids, which are believed to be noncovalently bound constituents of the outer leaflet of the unique mycobacterial outer membrane, are known important effectors of virulence (for review, see Ref. 1).Cox et al. (3) and Camacho et al.(2) independently demonstrated in 1999 that loss of PDIMs in PGL-deficient Mtb strains correlates with attenuation in animal models of tuberculosis. It has also been documented that production of PGLs confers a hyperlethality phenotype to PDIM-producing Mtb in murine disease models (4). Since these seminal reports, an overwhelming body of evidence has accumulated demonstrating that PDIMs and PGLs play key roles in virulence and host-pathogen interaction ...

Phospholipases C (PLCs) reversibly associate with membranes to hydrolyze phosphatidylinositol-4, 5-bisphosphate (PI [4,5]P 2 ) and comprise four main classes: ␤, ␥, ␦, and . Most eukaryotic PLCs contain a single, N-terminal pleckstrin homology (PH) domain, which is thought to play an important role in membrane targeting. The structure of a single PLC PH domain, that from PLC␦1, has been determined; this PH domain binds PI(4,5)P 2 with high affinity and stereospecificity and has served as a paradigm for PH domain functionality. However, experimental studies demonstrate that PH domains from different PLC classes exhibit diverse modes of membrane interaction, reflecting the dissimilarity in their amino acid sequences. To elucidate the structural basis for their differential membrane-binding specificities, we modeled the three-dimensional structures of all mammalian PLC PH domains by using bioinformatic tools and calculated their biophysical properties by using continuum electrostatic approaches. Our computational analysis accounts for a large body of experimental data, provides predictions for those PH domains with unknown functions, and indicates functional roles for regions other than the canonical lipid-binding site identified in the PLC␦1-PH structure. In particular, our calculations predict that (1) members from each of the four PLC classes exhibit strikingly different electrostatic profiles than those ordinarily observed for PH domains in general, (2) nonspecific electrostatic interactions contribute to the membrane localization of PLC␦-, PLC␥-, and PLC␤-PH domains, and (3) phosphorylation regulates the interaction of PLC␤-PH with its effectors through electrostatic repulsion. Our molecular models for PH domains from all of the PLC classes clearly demonstrate how a common structural fold can serve as a scaffold for a wide range of surface features and biophysical properties that support distinctive functional roles.

SUMMARY The evolutionary success of parasitoid wasps, a highly diverse group of insects widely used in biocontrol, depends on a variety of life history strategies in conflict with those of their hosts [1]. Drosophila melanogaster is a natural host of parasitic wasps of the genus Leptopilina. Attack by L. boulardi (Lb), a specialist wasp to flies of the melanogaster group, activates NF-κB-mediated humoral and cellular immunity. Inflammatory blood cells mobilize and encapsulate Lb eggs and embryos [2–5]. L. heterotoma (Lh), a generalist wasp, kills larval blood cells and actively suppresses immune responses. Spiked virus-like particles (VLPs) in wasp venom have clearly been linked to its successful parasitism of Drosophila [6], but VLP composition and their biotic nature have remained mysterious. Our proteomics studies reveal that VLPs lack viral coat proteins but possess a pharmacopoeia of (a) eukaryotic vesicular transport system, (b) immunity, and (c) previously unknown proteins. These novel proteins distinguish Lh from Lb VLPs; notably, some proteins specific to Lh VLPs possess sequence similarities with bacterial secretion system proteins. Structure-informed analyses of an abundant Lh VLP surface/spike-tip protein, p40, reveal similarities to the needle-tip invasin proteins SipD/IpaD of Gram negative bacterial type 3 secretion systems that breach immune barriers and deliver virulence factors into mammalian cells. Our studies suggest that Lh VLPs represent a new class of extracellular organelles and share pathways for protein delivery with both eukaryotic microvesicles and bacterial surface secretion systems. Given their mixed prokaryotic/eukaryotic properties, we propose the term Mixed Strategy Extracellular Vesicles (MSEVs) to replace VLP.