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1.
J Synchrotron Radiat ; 28(Pt 4): 1210-1215, 2021 Jul 01.
Article in English | MEDLINE | ID: mdl-34212886

ABSTRACT

BL-11C, a new protein crystallography beamline, is an in-vacuum undulator-based microfocus beamline used for macromolecular crystallography at the Pohang Accelerator Laboratory and it was made available to users in June 2017. The beamline is energy tunable in the range 5.0-20 keV to support conventional single- and multi-wavelength anomalous-dispersion experiments against a wide range of heavy metals. At the standard working energy of 12.659 keV, the monochromated beam is focused to 4.1 µm (V) × 8.5 µm (H) full width at half-maximum at the sample position and the measured photon flux is 1.3 × 1012 photons s-1. The experimental station is equipped with a Pilatus3 6M detector, a micro-diffractometer (MD2S) incorporating a multi-axis goniometer, and a robotic sample exchanger (CATS) with a dewar capacity of 90 samples. This beamline is suitable for structural determination of weakly diffracting crystalline substances, such as biomaterials, including protein, nucleic acids and their complexes. In addition, serial crystallography experiments for determining crystal structures at room temperature are possible. Herein, the current beamline characteristics, technical information for users and some recent scientific highlights are described.


Subject(s)
Crystallography, X-Ray/instrumentation , Macromolecular Substances/chemistry , Proteins/chemistry , Carbon Radioisotopes , Equipment Design , Legionella/chemistry , Muramidase/chemistry , Neisseria meningitidis/chemistry , Protein Structural Elements , Synchrotrons , Zymomonas/chemistry
2.
Pak J Pharm Sci ; 34(1): 21-34, 2021 Jan.
Article in English | MEDLINE | ID: mdl-34247999

ABSTRACT

Neisseria meningtidis is responsible for causing meningococcal meningitis along with acute septicaemia in human beings. Functional genomics strategies proved cruciality of certain genes/proteins in Neisseria meningitidis pathogenesis. During the present studies, three important Neisseria meningitidis proteins i.e., Dead box RNA-Helicase, Polyribonucleotide nucleotidyl-transferase PNPase and Ribonuclease-III were targeted for homology modeling and protein-ligand docking studies not only to determine their three dimensional architectures but also to identify their potential novel inhibitors. The Biscoumarin, malonitrile and indole derivatives showed the best inhibitory mode against all of the three enzymes. Since, these enzymes are assembled in Gram-negative bacteria to form RNA degradosome assembly therefore their inhibition will definitely shut off the degradosome assembly and ultimately the decay of RNA, which is an essential life process. This is the first ever structural investigation of these drug targets along with identification of potential novel drug candidates. We believe that these small chemical compounds will be proved as better drugs and will provide an excellent barrier towards Neisseria meningitidis pathogenesis.


Subject(s)
Anti-Bacterial Agents/chemistry , DEAD-box RNA Helicases/chemistry , DEAD-box RNA Helicases/genetics , Molecular Docking Simulation/methods , Neisseria meningitidis/chemistry , Neisseria meningitidis/genetics , Amino Acid Sequence , Anti-Bacterial Agents/pharmacology , Humans , Meningitis, Meningococcal/drug therapy , Meningitis, Meningococcal/genetics , Neisseria meningitidis/drug effects , Protein Structure, Secondary
3.
J Lipid Res ; 61(11): 1437-1449, 2020 11.
Article in English | MEDLINE | ID: mdl-32839198

ABSTRACT

Among the virulence factors in Neisseria infections, a major inducer of inflammatory cytokines is the lipooligosaccharide (LOS). The activation of NF-κB via extracellular binding of LOS or lipopolysaccharide (LPS) to the toll-like receptor 4 and its coreceptor, MD-2, results in production of pro-inflammatory cytokines that initiate adaptive immune responses. LOS can also be absorbed by cells and activate intracellular inflammasomes, causing the release of inflammatory cytokines and pyroptosis. Studies of LOS and LPS have shown that their inflammatory potential is highly dependent on lipid A phosphorylation and acylation, but little is known on the location and pattern of these posttranslational modifications. Herein, we report on the localization of phosphoryl groups on phosphorylated meningococcal lipid A, which has two to three phosphate and zero to two phosphoethanolamine substituents. Intact LOS with symmetrical hexa-acylated and asymmetrical penta-acylated lipid A moieties was subjected to high-resolution ion mobility spectrometry MALDI-TOF MS. LOS molecular ions readily underwent in-source decay to give fragments of the oligosaccharide and lipid A formed by cleavage of the ketosidic linkage, which enabled performing MS/MS (pseudo-MS3). The resulting spectra revealed several patterns of phosphoryl substitution on lipid A, with certain species predominating. The extent of phosphoryl substitution, particularly phosphoethanolaminylation, on the 4'-hydroxyl was greater than that on the 1-hydroxyl. The heretofore unrecognized phosphorylation patterns of lipid A of meningococcal LOS that we detected are likely determinants of both pathogenicity and the ability of the bacteria to evade the innate immune system.


Subject(s)
Lipid A/analysis , Neisseria meningitidis/chemistry , Carbohydrate Conformation , Lipid A/metabolism , Neisseria meningitidis/metabolism , Phosphorylation , Tandem Mass Spectrometry
4.
Org Biomol Chem ; 18(15): 2834-2837, 2020 04 15.
Article in English | MEDLINE | ID: mdl-32236232

ABSTRACT

2,4-Diamino-2,4,6-trideoxyglucose (bacillosamine) is a monosaccharide found in many pathogenic bacteria, variation in the functionalities appended to the amino groups occurs depending on the species the sugar is derived from. We here report the first synthesis of bacillosamine synthons that allow for the incorporation of two different functionalities at the C-2-N-acetyl and C-4-amines. We have developed chemistry to assemble a set of conjugation ready Neisseria meningitidis C-2-N-acetyl bacillosamine saccharides, carrying either an acetyl or (R)- or (S)-glyceroyl at the C-4 amine. The glyceroyl bacillosamines have been further extended at the C-3-OH with an α-d-galactopyranose to provide structures that occur as post-translational modifications of N. meningitidis PilE proteins, which make up the bacterial pili.


Subject(s)
Hexosamines/chemical synthesis , Neisseria meningitidis/chemistry , Hexosamines/chemistry , Molecular Structure
5.
Proc Natl Acad Sci U S A ; 114(9): 2218-2223, 2017 02 28.
Article in English | MEDLINE | ID: mdl-28193899

ABSTRACT

Multidrug-resistant (MDR) gram-negative bacteria have increased the prevalence of fatal sepsis in modern times. Colistin is a cationic antimicrobial peptide (CAMP) antibiotic that permeabilizes the bacterial outer membrane (OM) and has been used to treat these infections. The OM outer leaflet is comprised of endotoxin containing lipid A, which can be modified to increase resistance to CAMPs and prevent clearance by the innate immune response. One type of lipid A modification involves the addition of phosphoethanolamine to the 1 and 4' headgroup positions by phosphoethanolamine transferases. Previous structural work on a truncated form of this enzyme suggested that the full-length protein was required for correct lipid substrate binding and catalysis. We now report the crystal structure of a full-length lipid A phosphoethanolamine transferase from Neisseria meningitidis, determined to 2.75-Å resolution. The structure reveals a previously uncharacterized helical membrane domain and a periplasmic facing soluble domain. The domains are linked by a helix that runs along the membrane surface interacting with the phospholipid head groups. Two helices located in a periplasmic loop between two transmembrane helices contain conserved charged residues and are implicated in substrate binding. Intrinsic fluorescence, limited proteolysis, and molecular dynamics studies suggest the protein may sample different conformational states to enable the binding of two very different- sized lipid substrates. These results provide insights into the mechanism of endotoxin modification and will aid a structure-guided rational drug design approach to treating multidrug-resistant bacterial infections.


Subject(s)
Bacterial Proteins/chemistry , Ethanolaminephosphotransferase/chemistry , Lipid A/chemistry , Neisseria meningitidis/chemistry , Periplasm/chemistry , Amino Acid Sequence , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Catalytic Domain , Cloning, Molecular , Crystallography, X-Ray , Escherichia coli/genetics , Escherichia coli/metabolism , Ethanolaminephosphotransferase/genetics , Ethanolaminephosphotransferase/metabolism , Gene Expression , Genetic Vectors/chemistry , Genetic Vectors/metabolism , Lipid A/metabolism , Molecular Dynamics Simulation , Neisseria meningitidis/enzymology , Periplasm/enzymology , 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 , Substrate Specificity
6.
Semin Cell Dev Biol ; 67: 74-82, 2017 07.
Article in English | MEDLINE | ID: mdl-27916566

ABSTRACT

Extracellular vesicles are nano-sized spherical bilayered proteolipids encasing various components. Cells of all domains of life actively release these vesicles to the surroundings including various biological fluids. These extracellular vesicles are known to play pivotal roles in numerous pathophysiological functions. Extracellular vesicles have distinct characteristics, like high biocompatibility, safety, and nano-sized diameters that allow efficient drug loading capacity and long blood circulation half-life. These characteristics of extracellular vesicles have engrossed many scientists to harness them as new tools for novel delivery systems. This review will highlight the current state of the arts and problems of such extracellular vesicle-based theranostics, drug delivery and vaccines, and introduce "extracellular vesicle mimetics" as the novel alternative of extracellular vesicles. We hope to provide insights into the potential of extracellular vesicle mimetics as superior substitute to the natural extracellular vesicles that can be applied to theranostics, drug delivery, and vaccines against various diseases.


Subject(s)
Drug Delivery Systems/methods , Extracellular Vesicles/chemistry , Meningitis, Bacterial/prevention & control , Sepsis/prevention & control , Theranostic Nanomedicine/methods , Animals , Biomimetic Materials/administration & dosage , Biomimetic Materials/chemistry , Biomimetic Materials/metabolism , Drug Compounding/methods , Escherichia coli/chemistry , Extracellular Vesicles/immunology , Humans , Meningitis, Bacterial/immunology , Meningitis, Bacterial/microbiology , Nanostructures/administration & dosage , Nanostructures/chemistry , Neisseria meningitidis/chemistry , RNA, Small Interfering/genetics , RNA, Small Interfering/metabolism , Sepsis/immunology , Sepsis/microbiology , Vaccination , Vaccines/administration & dosage , Vaccines/chemistry
7.
PLoS Pathog ; 13(3): e1006244, 2017 03.
Article in English | MEDLINE | ID: mdl-28257520

ABSTRACT

Lactoferrin binding protein B (LbpB) is a bi-lobed outer membrane-bound lipoprotein that comprises part of the lactoferrin (Lf) receptor complex in Neisseria meningitidis and other Gram-negative pathogens. Recent studies have demonstrated that LbpB plays a role in protecting the bacteria from cationic antimicrobial peptides due to large regions rich in anionic residues in the C-terminal lobe. Relative to its homolog, transferrin-binding protein B (TbpB), there currently is little evidence for its role in iron acquisition and relatively little structural and biophysical information on its interaction with Lf. In this study, a combination of crosslinking and deuterium exchange coupled to mass spectrometry, information-driven computational docking, bio-layer interferometry, and site-directed mutagenesis was used to probe LbpB:hLf complexes. The formation of a 1:1 complex of iron-loaded Lf and LbpB involves an interaction between the Lf C-lobe and LbpB N-lobe, comparable to TbpB, consistent with a potential role in iron acquisition. The Lf N-lobe is also capable of binding to negatively charged regions of the LbpB C-lobe and possibly other sites such that a variety of higher order complexes are formed. Our results are consistent with LbpB serving dual roles focused primarily on iron acquisition when exposed to limited levels of iron-loaded Lf on the mucosal surface and effectively binding apo Lf when exposed to high levels at sites of inflammation.


Subject(s)
Transferrin-Binding Protein B/chemistry , Transferrin-Binding Protein B/metabolism , Amino Acid Sequence , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Carrier Proteins/chemistry , Carrier Proteins/metabolism , Interferometry , Iron/metabolism , Mass Spectrometry , Models, Molecular , Molecular Docking Simulation , Mutagenesis, Site-Directed , Neisseria meningitidis/chemistry , Neisseria meningitidis/metabolism , Protein Binding
8.
Inorg Chem ; 58(9): 5932-5942, 2019 May 06.
Article in English | MEDLINE | ID: mdl-30986048

ABSTRACT

Cluster 2 (288HDDDNAHAHTH298) from Neisseria meningitidis ZnuD is a flexible loop that captures zinc(II) ions, acting as a "fishing net". We describe its Zn(II) and Cu(II) binding capabilities, focusing on the thermodynamics of such interactions and comparing them with the complexes of the 1MAHHHHHHL9-NH2 region. Copper(II) complexes with the studied ZnuD regions are thermodynamically more stable than the zinc(II) ones-Cu(II) complexes dominate in solution even in close to physiological ratios of the studied metal ions (a 10-fold excess of Zn(II) over Cu(II)). While the binding of native Zn(II) has no significant impact on the structure of its transporter, Cu(II) binding induces a conformational change of cluster 2 to a polyproline II-like helix. To the best of our knowledge, this is the first evidence of a copper(II)-induced formation of a polyproline II-like structure in a sequence that does not contain proline residues. Cu(II) coordination also changes the structure of an intracellular, N-terminal, His-rich region, folding it to an α helix.


Subject(s)
Bacterial Proteins/metabolism , Cation Transport Proteins/metabolism , Copper/metabolism , Neisseria meningitidis/metabolism , Zinc/metabolism , Amino Acid Sequence , Bacterial Proteins/chemistry , Cation Transport Proteins/chemistry , Copper/chemistry , Humans , Meningococcal Infections/microbiology , Models, Molecular , Neisseria meningitidis/chemistry , Protein Binding , Thermodynamics , Zinc/chemistry
9.
Biologicals ; 60: 68-74, 2019 Jul.
Article in English | MEDLINE | ID: mdl-31126703

ABSTRACT

Sodium dodecyl sulfate (SDS) is a commonly used surfactant in protein solubilization and also during the polysaccharide purification. A GC-MS method has been developed to quantitate residual SDS in meningococcal polysaccharide serogroups A,C,W,Y and X circumventing the need of spectroscopic assays and HPLC based methods which are either unstable or requires the confirmation by MS. The developed method is based on quantitative conversion of SDS to 1-dodecanol at elevated temperature. Meningococcal polysaccharides and SDS standards were treated with methanolic-HCl and extracted in n-Hexane. The conversion of SDS to 1-dodecanol was confirmed by mass spectra and separation was achieved using a DB-5ms column. The mass spectral analysis of 1-dodecanol showed characteristic ions at m/z 168, 140 and 125. The GC-MS method validation performed on intermediate and purified meningococcal polysaccharides showed linearity with r2 > 0.99 over the concentration range of 2.5-200 µg/ml with LOD and LOQ of 1.27 and 3.85 respectively. The method was found to be precise, robust and accurate with spike recovery ranging 83-117%. The GC-MS method can be used in the quantitation of residual SDS during polysaccharide purification and provides valuable information about consistency of polysaccharide manufacturing process for development of pentavalent meningococcal conjugate vaccine.


Subject(s)
Drug Contamination , Gas Chromatography-Mass Spectrometry , Meningococcal Vaccines/analysis , Neisseria meningitidis/chemistry , Polysaccharides, Bacterial/analysis , Sodium Dodecyl Sulfate/analysis , Meningococcal Vaccines/chemistry , Polysaccharides, Bacterial/chemistry , Sodium Dodecyl Sulfate/chemistry
10.
Biochem J ; 475(1): 137-150, 2018 01 05.
Article in English | MEDLINE | ID: mdl-29187521

ABSTRACT

Dihydrodipicolinate reductase (DHDPR) catalyses the second reaction in the diaminopimelate pathway of lysine biosynthesis in bacteria and plants. In contrast with the tetrameric bacterial DHDPR enzymes, we show that DHDPR from Vitis vinifera (grape) and Selaginella moellendorffii are dimeric in solution. In the present study, we have also determined the crystal structures of DHDPR enzymes from the plants Arabidopsis thaliana and S. moellendorffii, which are the first dimeric DHDPR structures. The analysis of these models demonstrates that the dimer forms through the intra-strand interface, and that unique secondary features in the plant enzymes block tetramer assembly. In addition, we have also solved the structure of tetrameric DHDPR from the pathogenic bacteria Neisseria meningitidis Measuring the activity of plant DHDPR enzymes showed that they are much more prone to substrate inhibition than the bacterial enzymes, which appears to be a consequence of increased flexibility of the substrate-binding loop and higher affinity for the nucleotide substrate. This higher propensity to substrate inhibition may have consequences for ongoing efforts to increase lysine biosynthesis in plants.


Subject(s)
Bacterial Proteins/chemistry , Dihydrodipicolinate Reductase/chemistry , Picolinic Acids/chemistry , Plant Proteins/chemistry , Vitis/enzymology , Amino Acid Motifs , Arabidopsis/chemistry , Arabidopsis/enzymology , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Binding Sites , Coenzymes/chemistry , Coenzymes/metabolism , Crystallography, X-Ray , Dihydrodipicolinate Reductase/genetics , Dihydrodipicolinate Reductase/metabolism , Gene Expression , Kinetics , Lysine/biosynthesis , Models, Molecular , NAD/chemistry , NAD/metabolism , NADP/chemistry , NADP/metabolism , Neisseria meningitidis/chemistry , Neisseria meningitidis/enzymology , Picolinic Acids/metabolism , Plant Proteins/genetics , Plant Proteins/metabolism , Protein Binding , Protein Conformation, alpha-Helical , Protein Conformation, beta-Strand , Protein Interaction Domains and Motifs , Protein Multimerization , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Selaginellaceae/chemistry , Selaginellaceae/enzymology , Species Specificity , Substrate Specificity , Vitis/chemistry
11.
J Mol Recognit ; 31(7): e2709, 2018 07.
Article in English | MEDLINE | ID: mdl-29630761

ABSTRACT

Epitope imprinting is a promising technique for fabrication of novel diagnostic tools. In this study, an epitope imprinted methodology for recognition of target epitope sequence as well as targeted protein infused by bacterial infection in blood samples of patients suffering from brain fever is developed. Template sequence chosen is a ferric iron binding fbp A protein present in Neisseria meningitidis bacteria. To orient the imprinting template peptide sequence on gold surface of electrochemical quartz crystal microbalance (EQCM), thiol chemistry was utilized to form the self-assembled monolayer on EQCM electrode. Here, synergistic effects induced by various noncovalent interactions extended by multiple monomers (3-sulfopropyl methacrylate potassium-salt and benzyl methacrylate) were used in fabricating the imprinting polymeric matrix with additional firmness provided by N,N-methylene-bis-acrylamide as cross-linker and azo-isobutyronitrile as initiator. Extraction of template molecule was carried out with phosphate buffer solution. After extraction of epitope molecules from the polymeric film, epitope molecularly imprinted polymeric films were fabricated on EQCM electrode surface. Nonimprinted polymers were also synthesized in the similar manner without epitope molecule. Detection limit of epitope molecularly imprinted polymers and imprinting factor (epitope molecularly imprinted polymers/nonimprinted polymers) was calculated 1.39 ng mL-1 and 12.27 respectively showing high binding capacity and specific recognition behavior toward template molecule. Simplicity of present method would put forward a fast, facile, cost-effective diagnostic tool for mass health care.


Subject(s)
Bacterial Proteins/blood , Biosensing Techniques/methods , Epitopes/analysis , Iron-Binding Proteins/blood , Molecular Imprinting/methods , Neisseria meningitidis/chemistry , Peptides/chemistry , Acrylamides/chemistry , Amino Acid Sequence , Cross-Linking Reagents/chemistry , Electrodes , Epitopes/chemistry , Humans , Iron-Binding Proteins/analysis , Limit of Detection , Meningitis, Meningococcal/blood , Meningitis, Meningococcal/diagnosis , Meningitis, Meningococcal/microbiology , Methacrylates/chemistry , Quartz Crystal Microbalance Techniques
12.
Protein Expr Purif ; 152: 1-6, 2018 12.
Article in English | MEDLINE | ID: mdl-29953946

ABSTRACT

Factor H binding protein (fHbp) is the most promising vaccine candidate against serogroup B of Neisseria meningitidis which is a major cause of morbidity and mortality in children. In order to facilitate large scale production of a commercial vaccine, we previously used transgenic Arabidopsis thaliana, but plant-derived fHbp is still far away from a commercial vaccine due to less biomass production. Herein, we presented an alternative route for the production of recombinant fHbp from the seeds of transgenic rice. The OsrfHbp gene encoding recombinant fHbp fused protein was introduced into the genome of rice via Agrobacterium-mediated transformation. The both stable integration and transcription of the foreign OsrfHbp were confirmed by Southern blotting and RT-PCR analysis respectively. Further, the expression of fHbp protein was measured by immunoblotting analysis and quantified by ELISA. The results indicated that fHbp was successfully expressed and the highest yield of fHbp was 0.52 ±â€¯0.03% of TSP in the transgenic rice seeds. The purified fHbp protein showed good antigenicity and immunogenicity in the animal model. The results of this experiment offer a novel approach for large-scale production of plant-derived commercial vaccine fHbp.


Subject(s)
Antibodies, Bacterial/biosynthesis , Antigens, Bacterial/genetics , Bacterial Proteins/genetics , Meningitis, Meningococcal/prevention & control , Meningococcal Vaccines/biosynthesis , Oryza/genetics , Recombinant Fusion Proteins/genetics , Seeds/genetics , Agrobacterium tumefaciens/genetics , Agrobacterium tumefaciens/metabolism , Animals , Antigens, Bacterial/administration & dosage , Antigens, Bacterial/biosynthesis , Antigens, Bacterial/immunology , Bacterial Proteins/administration & dosage , Bacterial Proteins/biosynthesis , Bacterial Proteins/immunology , Female , Gene Expression , Genetic Vectors/chemistry , Genetic Vectors/metabolism , Humans , Immunization , Immunogenicity, Vaccine , Immunoglobulin G/biosynthesis , Meningitis, Meningococcal/immunology , Meningitis, Meningococcal/microbiology , Meningococcal Vaccines/administration & dosage , Meningococcal Vaccines/genetics , Mice , Mice, Inbred BALB C , Neisseria meningitidis/chemistry , Neisseria meningitidis/immunology , Oryza/metabolism , Plants, Genetically Modified , Recombinant Fusion Proteins/administration & dosage , Recombinant Fusion Proteins/biosynthesis , Recombinant Fusion Proteins/immunology , Seeds/metabolism , Transformation, Genetic
13.
Biometals ; 31(3): 381-398, 2018 06.
Article in English | MEDLINE | ID: mdl-29767396

ABSTRACT

A number of important Gram-negative pathogens that reside exclusively in the upper respiratory or genitourinary tract of their mammalian host rely on surface receptors that specifically bind host transferrin and lactoferrin as a source of iron for growth. The transferrin receptors have been targeted for vaccine development due to their critical role in acquiring iron during invasive infection and for survival on the mucosal surface. In this study, we focus on the lactoferrin receptors, determining their prevalence in pathogenic bacteria and comparing their prevalence in commensal Neisseria to other surface antigens targeted for vaccines; addressing the issue of a reservoir for vaccine escape and impact of vaccination on the microbiome. Since the selective release of the surface lipoprotein lactoferrin binding protein B by the NalP protease in Neisseria meningitidis argues against its utility as a vaccine target, we evaluated the release of outer membrane vesicles, and transferrin and lactoferrin binding in N. meningitidis and Moraxella catarrhalis. The results indicate that the presence of NalP reduces the binding of transferrin and lactoferrin by cells and native outer membrane vesicles, suggesting that NalP may impact all lipoprotein targets, thus this should not exclude lactoferrin binding protein B as a target.


Subject(s)
Bacterial Vaccines/immunology , Moraxella catarrhalis/immunology , Neisseria meningitidis/immunology , Receptors, Cell Surface/immunology , Microbial Sensitivity Tests , Moraxella catarrhalis/chemistry , Neisseria meningitidis/chemistry
14.
Biochem J ; 474(4): 517-519, 2017 02 15.
Article in English | MEDLINE | ID: mdl-28159897

ABSTRACT

Neisseria meningitidis is a Gram-negative bacterium capable of causing deadly invasive disease. Two recently developed vaccines against N. meningitidis serogroup B include recombinant factor H binding protein (fHbp), a surface protein that meningococci use to evade the host immune system. Many anti-fHbp monoclonal antibodies (mAbs) produced against fHbp fail to trigger complement-mediated bacteriolysis when used alone in vitro, but are highly synergistic and bactericidal when used in combination. This opened the door to defining the structural basis by which mAbs activate complement synergistically when binding to different epitopes on the same antigen, a story that is told by Malito et al. in a recent issue of the Biochemical Journal. Using two separate crystal structures of fHbp bound to Fabs from synergistic mAbs, they were able to model the structure of both full length antibodies bound simultaneously to fHbp. This revealed that the bound antibodies orient their Fc domains 115-130 Å apart, a distance that is compatible with multivalent C1q binding. The need for a precise orientation of Fc domains in order to efficiently activate effector functions is an emerging theme across multiple fields, and its implications could have broad impacts on vaccinology and immunotherapy.


Subject(s)
Antibodies, Bacterial/pharmacology , Antibodies, Monoclonal/pharmacology , Antigens, Bacterial/chemistry , Bacterial Proteins/chemistry , Immunoglobulin Fab Fragments/chemistry , Immunoglobulin Fc Fragments/chemistry , Antibodies, Bacterial/biosynthesis , Antibodies, Bacterial/chemistry , Antibodies, Monoclonal/biosynthesis , Antibodies, Monoclonal/chemistry , Antigens, Bacterial/immunology , Bacterial Proteins/antagonists & inhibitors , Bacterial Proteins/immunology , Binding Sites, Antibody , Complement C1q/chemistry , Complement C1q/metabolism , Crystallography, X-Ray , Drug Synergism , Drug Therapy, Combination , Epitopes/chemistry , Epitopes/immunology , Immunoglobulin Fab Fragments/immunology , Immunoglobulin Fc Fragments/immunology , Neisseria meningitidis/chemistry , Neisseria meningitidis/drug effects , Neisseria meningitidis/immunology , Protein Binding
15.
Microbiology (Reading) ; 163(7): 1003-1015, 2017 07.
Article in English | MEDLINE | ID: mdl-28699876

ABSTRACT

DNA methylation is a common modification occurring in all living organisms. 5-methylcytosine, which is produced in a reaction catalysed by C5-methyltransferases, can spontaneously undergo deamination to thymine, leading to the formation of T:G mismatches and C→T transitions. In Escherichia coli K-12, such mismatches are corrected by the Very Short Patch (VSP) repair system, with Vsr endonuclease as the key enzyme. Neisseria meningitidis possesses genes that encode DNA methyltransferases, including C5-methyltransferases. We report on the mutagenic potential of the meningococcal C5-methyltransferases M.NmeDI and M.NmeAI resulting from deamination of 5-methylcytosine. N. meningitidis strains also possess genes encoding potential Vsr endonucleases. Phylogenetic analysis of meningococcal Vsr endonucleases indicates that they belong to two phylogenetically distinct groups (type I or type II Vsr endonucleases). N. meningitidis serogroup C (FAM18) is a representative of meningococcal strains that carry two Vsr endonuclease genes (V.Nme18IIP and V.Nme18VIP). The V.Nme18VIP (type II) endonuclease cut DNA containing T:G mismatches in all tested nucleotide contexts. V.Nme18IIP (type I) is not active in vitro, but the change of Tyr69 to His69 in the amino acid sequence of the protein restores its endonucleolytic activity. The presence of tyrosine in position 69 is a characteristic feature of type I meningococcal Vsr proteins, while type II Vsr endonucleases possess His69. In addition to the T:G mismatches, V.Nme18VIP and V.Nme18IIPY69H recognize and digest DNA with T:T or U:G mispairs. Thus, for the first time, we demonstrate that the VSP repair system may have a wider significance and broader substrate specificity than DNA lesions that only result from 5-methylcytosine deamination.


Subject(s)
Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Endodeoxyribonucleases/chemistry , Endodeoxyribonucleases/metabolism , Neisseria meningitidis/enzymology , Amino Acid Sequence , Bacterial Proteins/genetics , DNA Methylation , DNA, Bacterial/genetics , DNA, Bacterial/metabolism , DNA-Cytosine Methylases/chemistry , DNA-Cytosine Methylases/genetics , DNA-Cytosine Methylases/metabolism , Endodeoxyribonucleases/genetics , Kinetics , Mutagenesis , Neisseria meningitidis/chemistry , Neisseria meningitidis/genetics , Substrate Specificity
16.
Microbiology (Reading) ; 163(7): 1016-1029, 2017 07.
Article in English | MEDLINE | ID: mdl-28696187

ABSTRACT

DNA processing chain A (DprA) is a DNA-binding protein that is ubiquitous in bacteria and expressed in some archaea. DprA is active in many bacterial species that are competent for transformation of DNA, but its role in Neisseriameningitidis (Nm) is not well characterized. An Nm mutant lacking DprA was constructed, and the phenotypes of the wild-type and ΔdprA mutant were compared. The salient feature of the phenotype of dprA null cells is the total lack of competence for genetic transformation shown by all of the donor DNA substrates tested in this study. Here, Nm wild-type and dprA null cells appeared to be equally resistant to genotoxic stress. The gene encoding DprANm was cloned and overexpressed, and the biological activities of DprANm were further investigated. DprANm binds ssDNA more strongly than dsDNA, but lacks DNA uptake sequence-specific DNA binding. DprANm dimerization and interaction with the C-terminal part of the single-stranded binding protein SSBNmwere demonstrated. dprA is co-expressed with smg, a downstream gene of unknown function, and the gene encoding topoisomerase 1, topA.


Subject(s)
Bacterial Proteins/metabolism , Membrane Proteins/metabolism , Neisseria meningitidis/metabolism , Transformation, Bacterial , Amino Acid Sequence , Bacterial Proteins/chemistry , Bacterial Proteins/genetics , DNA, Bacterial/genetics , DNA, Bacterial/metabolism , DNA, Single-Stranded/genetics , DNA, Single-Stranded/metabolism , DNA-Binding Proteins/chemistry , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , Membrane Proteins/chemistry , Membrane Proteins/genetics , Neisseria meningitidis/chemistry , Neisseria meningitidis/genetics , Sequence Alignment
17.
Chembiochem ; 18(13): 1251-1259, 2017 07 04.
Article in English | MEDLINE | ID: mdl-28395125

ABSTRACT

Sialylation of glycoproteins and glycolipids is catalyzed by sialyltransferases in the Golgi of mammalian cells, whereby sialic acid residues are added at the nonreducing ends of oligosaccharides. Because sialylated glycans play critical roles in a number of human physio-pathological processes, the past two decades have witnessed the development of modified sialic acid derivatives for a better understanding of sialic acid biology and for the development of new therapeutic targets. However, nothing is known about how individual mammalian sialyltransferases tolerate and behave towards these unnatural CMP-sialic acid donors. In this study, we devised several approaches to investigate the donor specificity of the human ß-d-galactoside sialyltransferases ST6Gal I and ST3Gal I by using two CMP-sialic acids: CMP-Neu5Ac, and CMP-Neu5N-(4pentynoyl)neuraminic acid (CMP-SiaNAl), an unnatural CMP-sialic acid donor with an extended and functionalized N-acyl moiety.


Subject(s)
Antigens, CD/metabolism , Cytidine Monophosphate N-Acetylneuraminic Acid/metabolism , Cytidine Monophosphate/analogs & derivatives , Glycolipids/metabolism , Glycoproteins/metabolism , Polysaccharides/metabolism , Sialic Acids/metabolism , Sialyltransferases/metabolism , Antigens, CD/chemistry , Antigens, CD/genetics , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Cloning, Molecular , Cytidine Monophosphate/chemistry , Cytidine Monophosphate/metabolism , Cytidine Monophosphate N-Acetylneuraminic Acid/chemistry , Gene Expression , Glycolipids/chemistry , Glycoproteins/chemistry , Glycoproteins/genetics , Glycosylation , HEK293 Cells , Humans , Kinetics , N-Acylneuraminate Cytidylyltransferase/genetics , N-Acylneuraminate Cytidylyltransferase/metabolism , Neisseria meningitidis/chemistry , Neisseria meningitidis/enzymology , Polysaccharides/chemistry , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Sialic Acids/chemistry , Sialyltransferases/chemistry , Sialyltransferases/genetics , Substrate Specificity , beta-Galactoside alpha-2,3-Sialyltransferase
18.
Bioorg Med Chem ; 25(12): 3182-3194, 2017 06 15.
Article in English | MEDLINE | ID: mdl-28462843

ABSTRACT

Non-substrate-like inhibitors of glycosyltransferases are sought after as chemical tools and potential lead compounds for medicinal chemistry, chemical biology and drug discovery. Here, we describe the discovery of a novel small molecular inhibitor chemotype for LgtC, a retaining α-1,4-galactosyltransferase involved in bacterial lipooligosaccharide biosynthesis. The new inhibitors, which are structurally unrelated to both the donor and acceptor of LgtC, have low micromolar inhibitory activity, comparable to the best substrate-based inhibitors. We provide experimental evidence that these inhibitors react covalently with LgtC. Results from detailed enzymological experiments with wild-type and mutant LgtC suggest the non-catalytic active site residue Cys246 as a likely target residue for these inhibitors. Analysis of available sequence and structural data reveals that non-catalytic cysteines are a common motif in the active site of many bacterial glycosyltransferases. Our results can therefore serve as a blueprint for the rational design of non-substrate-like, covalent inhibitors against a broad range of other bacterial glycosyltransferases.


Subject(s)
Bacterial Proteins/antagonists & inhibitors , Enzyme Inhibitors/chemistry , Enzyme Inhibitors/pharmacology , Glycosyltransferases/antagonists & inhibitors , Neisseria meningitidis/enzymology , Pasteurella multocida/enzymology , Animals , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Catalytic Domain/drug effects , Cattle , Drug Discovery , Glycosyltransferases/chemistry , Glycosyltransferases/metabolism , Humans , Meningitis, Meningococcal/drug therapy , Meningitis, Meningococcal/microbiology , Molecular Docking Simulation , Neisseria meningitidis/chemistry , Pasteurella Infections/drug therapy , Pasteurella Infections/microbiology , Pasteurella multocida/chemistry
19.
J Bacteriol ; 198(21): 3029-3040, 2016 11 01.
Article in English | MEDLINE | ID: mdl-27551020

ABSTRACT

Neisseria gonorrhoeae (gonococci) and Neisseria meningitidis (meningococci) are human pathogens that cause gonorrhea and meningococcal meningitis, respectively. Both N. gonorrhoeae and N. meningitidis release a number of small peptidoglycan (PG) fragments, including proinflammatory PG monomers, although N. meningitidis releases fewer PG monomers. The PG fragments released by N. gonorrhoeae and N. meningitidis are generated in the periplasm during cell wall remodeling, and a majority of these fragments are transported into the cytoplasm by an inner membrane permease, AmpG; however, a portion of the PG fragments are released into the extracellular environment through unknown mechanisms. We previously reported that the expression of meningococcal ampG in N. gonorrhoeae reduced PG monomer release by gonococci. This finding suggested that the efficiency of AmpG-mediated PG fragment recycling regulates the amount of PG fragments released into the extracellular milieu. We determined that three AmpG residues near the C-terminal end of the protein modulate AmpG's efficiency. We also investigated the association between PG fragment recycling and release in two species of human-associated nonpathogenic Neisseria: N. sicca and N. mucosa Both N. sicca and N. mucosa release lower levels of PG fragments and are more efficient at recycling PG fragments than N. gonorrhoeae Our results suggest that N. gonorrhoeae has evolved to increase the amounts of toxic PG fragments released by reducing its PG recycling efficiency. IMPORTANCE: Neisseria gonorrhoeae and Neisseria meningitidis are human pathogens that cause highly inflammatory diseases, although N. meningitidis is also frequently found as a normal member of the nasopharyngeal microbiota. Nonpathogenic Neisseria, such as N. sicca and N. mucosa, also colonize the nasopharynx without causing disease. Although all four species release peptidoglycan fragments, N. gonorrhoeae is the least efficient at recycling and releases the largest amount of proinflammatory peptidoglycan monomers, partly due to differences in the recycling permease AmpG. Studying the interplay between bacterial physiology (peptidoglycan metabolism) and pathogenesis (release of toxic monomers) leads to an increased understanding of how different bacterial species maintain asymptomatic colonization or cause disease and may contribute to efforts to mitigate disease.


Subject(s)
Bacterial Proteins/metabolism , Membrane Transport Proteins/metabolism , Neisseria gonorrhoeae/enzymology , Neisseria meningitidis/enzymology , Neisseriaceae Infections/microbiology , Peptidoglycan/metabolism , Amino Acid Motifs , Bacterial Proteins/chemistry , Bacterial Proteins/genetics , Cell Wall/chemistry , Cell Wall/genetics , Cell Wall/metabolism , Membrane Transport Proteins/chemistry , Membrane Transport Proteins/genetics , Neisseria/classification , Neisseria/enzymology , Neisseria/growth & development , Neisseria/metabolism , Neisseria gonorrhoeae/chemistry , Neisseria gonorrhoeae/cytology , Neisseria gonorrhoeae/growth & development , Neisseria meningitidis/chemistry , Neisseria meningitidis/cytology , Neisseria meningitidis/growth & development , Peptidoglycan/chemistry , Peptidoglycan/toxicity
20.
J Biol Chem ; 290(40): 24355-66, 2015 Oct 02.
Article in English | MEDLINE | ID: mdl-26286750

ABSTRACT

Neisseria meningitidis is a human pathogen causing bacterial meningitis and sepsis. The capsular polysaccharide surrounding N. meningitidis is a major virulence factor. The capsular polysaccharide consists of polyhexosamine phosphates in N. meningitidis serogroups A and X. The capsule polymerases (CPs) of these serogroups are members of the Stealth protein family comprising d-hexose-1-phosphate transferases from bacterial and protozoan pathogens. CslA, one of two putative CPs of the pathophysiologically less relevant N. meningitidis serogroup L, is one of the smallest known Stealth proteins and caught our attention for structure-function analyses. Because the N. meningitidis serogroup L capsule polymer consists of a trimeric repeating unit ([→3)-ß-d-GlcNAc-(1→3)-ß-d-GlcNAc-(1→3)-α-d-GlcNAc-(1→OPO3→]n), we speculated that the two predicted CPs (CslA and CslB) work together in polymer production. Consequently, both enzymes were cloned, overexpressed, and purified as recombinant proteins. Contrary to our expectation, enzymatic testing identified CslB to be sufficient to catalyze the synthesis of the complex trimeric N. meningitidis serogroup L capsule polymer repeating unit. No polymerase activity was detected for CslA, although the enzyme facilitated the hydrolysis of UDP-GlcNAc. Bioinformatics analyses identified two glycosyltransferase (GT) domains in CslB. The N-terminal domain modeled with 100% confidence onto a number of GT-A folded proteins, whereas the C-terminal domain modeled with 100% confidence onto TagF, a GT-B folded teichoic acid polymerase from Staphylococcus epidermidis. Amino acid positions known to have critical catalytic functions in the template proteins were conserved in CslB, and their point mutation abolished enzyme activity. CslB represents an enzyme of so far unique complexity regarding both the catalyzed reaction and enzyme architecture.


Subject(s)
Glycoside Hydrolases/chemistry , Neisseria meningitidis/chemistry , Polysaccharides/chemistry , Bacterial Capsules/genetics , Bacterial Proteins/chemistry , Carbohydrate Sequence , Catalysis , Cloning, Molecular , Computational Biology , Epitopes/chemistry , Esters/chemistry , Glycosides/chemistry , Hydrolysis , Molecular Sequence Data , Mutation , Phosphorylation , Polymers/chemistry , Protein Binding , Protein Folding , Protein Multimerization , Protein Structure, Tertiary , Recombinant Proteins/chemistry , Staphylococcus epidermidis , Transferases (Other Substituted Phosphate Groups)/chemistry
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