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1.
Polymers (Basel) ; 15(9)2023 May 01.
Article in English | MEDLINE | ID: mdl-37177309

ABSTRACT

Eco-friendly chemical methods using FDA-approved Pluronic F127 (PLU) block copolymer have garnered much attention for simultaneously forming and stabilizing Au nanoparticles (AuNPs). Given the remarkable properties of AuNPs for usage in various fields, especially in biomedicine, we performed a systematic study to synthesize AuNP-PLU nanocomposites under optimized conditions using UV irradiation for accelerating the reaction. The use of UV irradiation at 254 nm resulted in several advantages over the control method conducted under ambient light (control). The AuNP-PLU-UV nanocomposite was produced six times faster, lasting 10 min, and exhibited lower size dispersion than the control. A set of experimental techniques was applied to determine the structure and morphology of the produced nanocomposites as affected by the UV irradiation. The MTT assay was conducted to estimate IC50 values of AuNP-PLU-UV in NIH 3T3 mouse embryonic fibroblasts, and the results suggest that the sample is more compatible with cells than control samples. Afterward, in vivo maternal and fetal toxicity assays were performed in rats to evaluate the effect of AuNP-PLU-UV formulation during pregnancy. Under the tested conditions, the treatment was found to be safe for the mother and fetus. As a proof of concept or application, the synthesized Au:PLU were tested as contrast agents with an X-ray computed tomography scan (X-ray CT).

2.
Biochim Biophys Acta Gen Subj ; 1867(1): 130265, 2023 01.
Article in English | MEDLINE | ID: mdl-36280021

ABSTRACT

BACKGROUND: Some cationic and amphiphilic α-helical segments of proteins adsorb to prokaryotic membranes when synthesized as individual polypeptide sequences, resulting in broad and potent antimicrobial activity. However, amphiphilicity, a determinant physicochemical property for peptide-membrane interactions, can also be observed in some ß-sheets. METHODS: The software Kamal was used to scan the human reference proteome for short (7-11 amino acid residues) cationic and amphiphilic protein segments with the characteristic periodicity of ß-sheets. Some of the uncovered peptides were chemically synthesized, and antimicrobial assays were conducted. Biophysical techniques were used to probe the molecular interaction of one peptide with phospholipid vesicles, lipopolysaccharides (LPS) and the bacterium Escherichia coli. RESULTS: Thousands of compatible segments were found in human proteins, five were synthesized, and three presented antimicrobial activity in the micromolar range. Hs10, a nonapeptide fragment of the Complement C3 protein, could inhibit only the growth of tested Gram-negative microorganisms, presenting also little cytotoxicity to human fibroblasts. Hs10 interacted with LPS while transitioning from an unstructured segment to a ß-sheet and increased the hydrodynamic radius of LPS particles. This peptide also promoted morphological alterations in E. coli cells. CONCLUSIONS: Data presented herein introduce yet another molecular template to probe proteins in search for encrypted membrane-active segments and demonstrates that, using this approach, short peptides with low cytotoxicity and high selectivity to prokaryotic cells might be obtained. GENERAL SIGNIFICANCE: This work widens the biotechnological potential of the human proteome as a source of antimicrobial peptides with application in human health.


Subject(s)
Anti-Infective Agents , Escherichia coli , Humans , Escherichia coli/metabolism , Antimicrobial Peptides , Lipopolysaccharides/pharmacology , Proteome , Gram-Negative Bacteria/metabolism , Peptides/chemistry
3.
Macromol Mater Eng ; 306(1)2021 Jan.
Article in English | MEDLINE | ID: mdl-34539237

ABSTRACT

In order to better understand the relationship between Flagelliform (Flag) spider silk molecular structural organization and the mechanisms of fiber assembly, it was designed and produced the Nephilengys cruentata Flag spidroin analogue rNcFlag2222. The recombinant proteins are composed by the elastic repetitive glycine-rich motifs (GPGGX/GGX) and the spacer region, rich in hydrophilic charged amino acids, present at the native silk spidroin. Using different approaches for nanomolecular protein analysis, the structural data of rNcFlag2222 recombinant proteins were compared in its fibrillar and in its fully solvated states. Based on the results was possible to identify the molecular structural dynamics of NcFlag2222 prior to and after fiber formation. Overal rNcFlag2222 shows a mixture of semiflexible and rigid conformations, characterized mostly by the presence of PPII, ß-turn and ß-sheet. These results agree with previous studies and bring insights about the molecular mechanisms that might driven Flag silk fibers assembly and elastomeric behavior.

4.
J Med Chem ; 63(17): 9500-9511, 2020 09 10.
Article in English | MEDLINE | ID: mdl-32787139

ABSTRACT

Peptidase inhibitors (PIs) have been broadly studied due to their wide therapeutic potential for human diseases. A potent trypsin inhibitor from Tityus obscurus scorpion venom was characterized and named ToPI1, with 33 amino acid residues and three disulfide bonds. The X-ray structure of the ToPI1:trypsin complex, in association with the mass spectrometry data, indicate a sequential set of events: the complex formation with the inhibitor Lys32 in the trypsin S1 pocket, the inhibitor C-terminal residue Ser33 cleavage, and the cyclization of ToPI1 via a peptide bond between residues Ile1 and Lys32. Kinetic and thermodynamic characterization of the complex was obtained. ToPI1 shares no sequence similarity with other PIs characterized to date and is the first PI with CS-α/ß motif described from animal venoms. In its cyclic form, it shares structural similarities with plant cyclotides that also inhibit trypsin. These results bring new insights for studies with venom compounds, PIs, and drug design.


Subject(s)
Cyclotides/chemistry , Cyclotides/metabolism , Scorpion Venoms/chemistry , Trypsin/metabolism , Amino Acid Sequence , Animals , CHO Cells , Cricetulus , Cyclization , Models, Molecular , Protein Binding , Protein Conformation
5.
Recent Pat Biotechnol ; 13(4): 316-328, 2019.
Article in English | MEDLINE | ID: mdl-31333134

ABSTRACT

BACKGROUND: The Human Cytomegalovirus (HCMV) has infected more than 90% of the world population and its prevalence can be related to the individuals geographical and socialeconomic status. Serological tests based on ELISA are pivotal for HCMV diagnosis. Due to the lack of standardization in the production/purification of antigens from viral preparations, ELISA tests are based on several recombinant proteins or peptides. As an alternative, multiepitope proteins may be employed. OBJECTIVE: In this work, we developed a recombinant multiepitope protein (rMEHCMV) for HCMV diagnosis based on conserved and immunodominant epitopes derived from tegument (pp150, pp65 and pp28), glycoprotein gB (pp38) and DNA polymerase subunit (pp52) of HCMV. METHODS: The rMEHCMV gene was synthesized de novo and overexpressed in Escherichia coli cells. The recombinant protein was purified to homogeneity using a Ni-NTA column. Biophysical analysis of recombinant protein was performed by circular dichroism. A preliminary biological activity test was performed using 12 positive human sera samples by using an in-house IgG ELISA. The following patents database were consulted: Espacenet, Google Patents and the National Institute of Intellectual Property (INPI, Brazil). RESULTS: The recombinant multiepitope protein was successfully expressed in E. coli. The structural data obtained by circular dichroism spectroscopy showed that rMEHCMV is structurally disordered. An in-house IgG ELISA test with rMEHCMV was successfully used to recognized IgG from human serum samples. CONCLUSION: Together, our results show that rMEHCMV should be considered as a potential antigenic target for HCMV diagnosis.


Subject(s)
Antibodies, Viral , Cytomegalovirus Infections/diagnosis , Cytomegalovirus/genetics , Recombinant Proteins , Viral Proteins , Antibodies, Viral/blood , Antibodies, Viral/immunology , Cytomegalovirus Infections/immunology , Enzyme-Linked Immunosorbent Assay/methods , Epitopes/genetics , Escherichia coli/genetics , Humans , Hydrogen-Ion Concentration , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/immunology , Viral Proteins/chemistry , Viral Proteins/genetics , Viral Proteins/immunology
6.
Int J Biol Macromol ; 127: 385-395, 2019 Apr 15.
Article in English | MEDLINE | ID: mdl-30654038

ABSTRACT

Commercial interest in plant cell wall degrading enzymes (PCWDE) is motivated by their potential for energy or bioproduct generation that reduced dependency on non-renewable (fossil-derived) feedstock. Therefore, underlying work analysed the Penicillium chrysogenum isolate for PCWDE production by employing different biomass as a carbon source. Among the produced enzymes, three xylanase isoforms were observed in the culture filtrate containing sugarcane bagasse. Xylanase (PcX1) presenting 35 kDa molecular mass was purified by gel filtration and anion exchange chromatography. Unfolding was probed and analysed using fluorescence, circular dichroism and enzyme assay methods. Secondary structure contents were estimated by circular dichroism 45% α-helix and 10% ß-sheet, consistent with the 3D structure predicted by homology. PcX1 optimally active at pH 5.0 and 30 °C, presenting t1/2 19 h at 30 °C and 6 h at 40 °C. Thermodynamic parameters/melting temperature 51.4 °C confirmed the PcX1 stability at pH 5.0. PcX1 have a higher affinity for oat spelt xylan, KM 1.2 mg·mL-1, in comparison to birchwood xylan KM 29.86 mg·mL-1, activity was inhibited by Cu+2 and activated by Zn+2. PcX1 exhibited significant tolerance for vanillin, trans-ferulic acid, ρ-coumaric acid, syringaldehyde and 4-hydroxybenzoic acid, activity slightly inhibited (17%) by gallic and tannic acid.


Subject(s)
Endo-1,4-beta Xylanases/chemistry , Endo-1,4-beta Xylanases/isolation & purification , Fungal Proteins/chemistry , Fungal Proteins/isolation & purification , Penicillium chrysogenum/enzymology , Agriculture , Enzyme Stability , Hydrogen-Ion Concentration , Medical Waste , Protein Structure, Secondary , Protein Unfolding
7.
Recent Pat Food Nutr Agric ; 10(2): 131-139, 2019.
Article in English | MEDLINE | ID: mdl-30516117

ABSTRACT

BACKGROUND: Phytases are enzymes capable of degrading phytic acid and used in animal feed supplementation in order to improve digestibility through the release of minerals such as phosphorus. OBJECTIVE: The main goal of this study was to express and characterize a Yersinia intermedia phytase expressed in Escherichia coli cells. METHODS: The Y. intermedia phytase gene was synthesized and overexpressed in Escherichia coli cells. The phytase recombinante (rPHY) was purified to homogeneity using a Ni-NTA column. The biochemical and biophysical properties of the rPHY were measured in order to fully characterize the recombinant enzyme. The following patents database were consulted: Espacenet, USPTO, LATIPAT, Patent Scope, WIPO and Google Patents. RESULTS: The results showed that the rPHY is active at 37-40ºC and presented an optimal pH and temperature of 8.0 and 40°C, respectively. The phytase rPHY was activated by Cu2+ ion and showed resistance to trypsin and pepsin, retaining 55% of the activity at the ratio of 0.02. Furthermore, the dissociation constant (Kd = 1.1150 ± 0.0087 mM), as estimated by a fluorescence binding assay, suggests a medium affinity of the enzyme with the substrate. CONCLUSION: The results of this article can be considered as innovative and for this reason, they were protected by Intellectual Property Law in Brazil. Take together, the biochemical properties of the rPHY could be useful in future for its industrial application of this enzyme as an additive in the monogastric feed.


Subject(s)
6-Phytase/metabolism , Escherichia coli/metabolism , Patents as Topic , Yersinia/enzymology , 6-Phytase/chemistry , Escherichia coli/genetics , Gene Expression Regulation, Bacterial , Gene Expression Regulation, Enzymologic , Protein Conformation
8.
Front Microbiol ; 7: 1844, 2016.
Article in English | MEDLINE | ID: mdl-27917162

ABSTRACT

The incidence of fungal infections has been increasing in the last decades, while the number of available antifungal classes remains the same. The natural and acquired resistance of some fungal species to available therapies, associated with the high toxicity of these drugs on the present scenario and makes an imperative of the search for new, more efficient and less toxic therapeutic choices. Antimicrobial peptides (AMPs) are a potential class of antimicrobial drugs consisting of evolutionarily conserved multifunctional molecules with both microbicidal and immunomodulatory properties being part of the innate immune response of diverse organisms. In this study, we evaluated 11 scorpion-venom derived non-disulfide-bridged peptides against Cryptococcus neoformans and Candida spp., which are important human pathogens. Seven of them, including two novel molecules, showed activity against both genera with minimum inhibitory concentration values ranging from 3.12 to 200 µM and an analogous activity against Candida albicans biofilms. Most of the peptides presented low hemolytic and cytotoxic activity against mammalian cells. Modifications in the primary peptide sequence, as revealed by in silico and circular dichroism analyses of the most promising peptides, underscored the importance of cationicity for their antimicrobial activity as well as the amphipathicity of these molecules and their tendency to form alpha helices. This is the first report of scorpion-derived AMPs against C. neoformans and our results underline the potential of scorpion venom as a source of antimicrobials. Further characterization of their mechanism of action, followed by molecular optimization to decrease their cytotoxicity and increase antimicrobial activity, is needed to fully clarify their real potential as antifungals.

9.
Sci Rep ; 6: 38031, 2016 12 09.
Article in English | MEDLINE | ID: mdl-27934875

ABSTRACT

A current metagenomics focus is to interpret and transform collected genomic data into biological information. By combining structural, functional and genomic data we have assessed a novel bacterial protein selected from a carbohydrate-related activity screen in a microbial metagenomic library from Capra hircus (domestic goat) gut. This uncharacterized protein was predicted as a bacterial cell wall-modifying enzyme (CWME) and shown to contain four domains: an N-terminal, a cysteine protease, a peptidoglycan-binding and an SH3 bacterial domain. We successfully cloned, expressed and purified this putative cysteine protease (PCP), which presented autoproteolytic activity and inhibition by protease inhibitors. We observed cell wall hydrolytic activity and ampicillin binding capacity, a characteristic of most bacterial CWME. Fluorimetric binding analysis yielded a Kb of 1.8 × 105 M-1 for ampicillin. Small-angle X-ray scattering (SAXS) showed a maximum particle dimension of 95 Å with a real-space Rg of 28.35 Å. The elongated molecular envelope corroborates the dynamic light scattering (DLS) estimated size. Furthermore, homology modeling and SAXS allowed the construction of a model that explains the stability and secondary structural changes observed by circular dichroism (CD). In short, we report a novel cell wall-modifying autoproteolytic PCP with insight into its biochemical, biophysical and structural features.


Subject(s)
Ampicillin/metabolism , Bacteria/enzymology , Cloning, Molecular/methods , Cysteine Proteases/chemistry , Cysteine Proteases/metabolism , Goats/microbiology , Animals , Bacteria/chemistry , Bacteria/genetics , Bacterial Proteins/chemistry , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Cell Wall/enzymology , Cell Wall/genetics , Cysteine Proteases/genetics , Hydrolysis , Metagenome , Models, Molecular , Protein Binding , Protein Domains , Protein Stability , Protein Structure, Secondary , Scattering, Small Angle , X-Ray Diffraction
10.
Biochim Biophys Acta ; 1858(7 Pt A): 1488-98, 2016 Jul.
Article in English | MEDLINE | ID: mdl-27063608

ABSTRACT

Recently, several peptides have been studied regarding the defence process against pathogenic microorganisms, which are able to act against different targets, with the purpose of developing novel bioactive compounds. The present work focuses on the structural and functional evaluation of the palindromic antimicrobial peptide Pa-MAP2, designed based on the peptide Pa-MAP from Pleuronectes americanus. For a better structural understanding, molecular modelling analyses were carried out, together with molecular dynamics and circular dichroism, in different media. Antibacterial activity against Gram-negative and positive bacteria was evaluated, as well as cytotoxicity against human erythrocytes, RAW 264.7, Vero and L6 cells. In silico docking experiments, lipid vesicle studies, and atomic force microscopy (AFM) imaging were carried out to explore the activity of the peptide. In vivo studies on infected mice were also done. The palindromic primary sequence favoured an α-helix structure that was pH dependent, only present on alkaline environment, with dynamic N- and C-terminals that are stabilized in anionic media. Pa-MAP2 only showed activity against Gram-negative bacteria, with a MIC of 3.2 µM, and without any cytotoxic effect. In silico, lipid vesicles and AFM studies confirm the preference for anionic lipids (POPG, POPS, DPPE, DPPG and LPS), with the positively charged lysine residues being essential for the initial electrostatic interaction. In vivo studies showed that Pa-MAP2 increases to 100% the survival rate of mice infected with Escherichia coli. Data here reported indicated that palindromic Pa-MAP2 could be an alternative candidate for use in therapeutics against Gram-negative bacterial infections.


Subject(s)
Anti-Bacterial Agents/chemistry , Antimicrobial Cationic Peptides/chemistry , Escherichia coli Infections/drug therapy , Peptidomimetics/chemistry , Alanine/chemistry , Amino Acid Sequence , Animals , Anti-Bacterial Agents/chemical synthesis , Anti-Bacterial Agents/pharmacology , Antimicrobial Cationic Peptides/isolation & purification , Cell Survival/drug effects , Chlorocebus aethiops , Cholesterol/chemistry , Erythrocytes/drug effects , Escherichia coli/drug effects , Escherichia coli/growth & development , Escherichia coli Infections/microbiology , Escherichia coli Infections/mortality , Flounder/metabolism , Humans , Lipopolysaccharides/chemistry , Mice , Molecular Dynamics Simulation , Molecular Sequence Data , Peptidomimetics/chemical synthesis , Peptidomimetics/pharmacology , Phosphatidylcholines/chemistry , Phosphatidylglycerols/chemistry , Phosphatidylserines/chemistry , Protein Structure, Secondary , Protein Structure, Tertiary , Survival Analysis , Unilamellar Liposomes/chemistry , Vero Cells
11.
Hepat Res Treat ; 2016: 6592143, 2016.
Article in English | MEDLINE | ID: mdl-26942007

ABSTRACT

Hepatitis C virus (HCV) has emerged as the major pathogen of liver diseases in recent years leading to worldwide blood-transmitted chronic hepatitis, liver cirrhosis, and hepatocellular carcinoma. Accurate diagnosis for differentiation of hepatitis C from other viruses is thus of pivotal importance for proper treatment. In this work we developed a recombinant multiepitope protein (rMEHCV) for hepatitis C diagnostic purposes based on conserved and immunodominant epitopes from core, NS3, NS4A, NS4B, and NS5 regions of the virus polyprotein of genotypes 1a, 1b, and 3a, the most prevalent genotypes in South America (especially in Brazil). A synthetic gene was designed to encode eight epitopes in tandem separated by a flexible linker and bearing a his-tag at the C-terminal end. The recombinant protein was produced in Escherichia coli and purified in a single affinity chromatographic step with >95% purity. Purified rMEHCV was used to perform an ELISA which showed that the recombinant protein was recognized by IgG and IgM from human serum samples. The structural data obtained by circular dichroism (CD) spectroscopy showed that rMEHCV is a highly thermal stable protein at neutral and alkaline conditions. Together, these results show that rMEHCV should be considered an alternative antigen for hepatitis C diagnosis.

12.
Arch Biochem Biophys ; 580: 50-6, 2015 Aug 15.
Article in English | MEDLINE | ID: mdl-26116788

ABSTRACT

Optimization of cellulose enzymatic hydrolysis is crucial for cost effective bioethanol production from lignocellulosic biomass. Enzymes involved in cellulose hydrolysis are often inhibited by their end-products, cellobiose and glucose. Efforts have been made to produce more efficient enzyme variants that are highly tolerant to product accumulation; however, further improvements are still necessary. Based on an alternative approach we initially investigated whether recently formed glucose could be phosphorylated into glucose-6-phosphate to circumvent glucose accumulation and avoid inhibition of beta-glucosidase from Bacillus polymyxa (BGLA). The kinetic properties and structural analysis of BGLA in the presence of glucose-6-phosphate (G6P) were investigated. Kinetic studies demonstrated that enzyme was not inhibited by G6P. In contrast, the presence of G6P activated the enzyme, prevented beta glucosidase feedback inhibition by glucose accumulation and improved protein stability. G6P binding was investigated by fluorescence quenching experiments and the respective association constant indicated high affinity binding of G6P to BGLA. Data reported here are of great impact for future design strategies for second-generation bioethanol production.


Subject(s)
Bacillus/chemistry , Bacterial Proteins/chemistry , Glucose-6-Phosphate/chemistry , beta-Glucosidase/chemistry , Bacillus/enzymology , Bacterial Proteins/genetics , Enzyme Activation , Enzyme Stability , Escherichia coli/genetics , Escherichia coli/metabolism , Gene Expression , Glucose/chemistry , Kinetics , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Thermodynamics , beta-Glucosidase/genetics
13.
Org Biomol Chem ; 11(29): 4764-77, 2013 Aug 07.
Article in English | MEDLINE | ID: mdl-23680860

ABSTRACT

In the present manuscript, a novel fluorescent chalcone derivative is synthesized and its photophysical properties are fully characterized. The designed fluorophore is applied as a probe to study protein-dye interactions with bovine serum albumin. Circular dichroism gave interesting results on the thermodynamics of the interaction. NMR spectroscopy, especially relaxation measurements, revealed the atoms in the chalcone derivative that interacts with the protein upon binding. Molecular docking calculations indicate that the most favourable binding sites are near the two tryptophan residues. Furthermore, ab initio and DFT calculations offer insights into the reactivity and physicochemical properties of this novel fluorophore.


Subject(s)
Chalcone/chemistry , Fluorescent Dyes/chemistry , Quantum Theory , Serum Albumin, Bovine/chemistry , Animals , Cattle , Chalcone/chemical synthesis , Crystallography, X-Ray , Fluorescent Dyes/chemical synthesis , Models, Molecular , Molecular Structure , Photochemical Processes
14.
PLoS One ; 7(10): e47047, 2012.
Article in English | MEDLINE | ID: mdl-23056574

ABSTRACT

Recently, defense peptides that are able to act against several targets have been characterized. The present work focuses on structural and functional evaluation of the peptide analogue Pa-MAP, previously isolated as an antifreeze peptide from Pleuronectes americanus. Pa-MAP showed activities against different targets such as tumoral cells in culture (CACO-2, MCF-7 and HCT-116), bacteria (Escherichia coli ATCC 8739 and Staphylococcus aureus ATCC 25923), viruses (HSV-1 and HSV-2) and fungi (Candida parapsilosis ATCC 22019, Trichophyton mentagrophytes (28d&E) and T. rubrum (327)). This peptide did not show toxicity against mammalian cells such as erythrocytes, Vero and RAW 264.7 cells. Molecular mechanism of action was related to hydrophobic residues, since only the terminal amino group is charged at pH 7 as confirmed by potentiometric titration. In order to shed some light on its structure-function relations, in vitro and in silico assays were carried out using circular dichroism and molecular dynamics. Furthermore, Pa-MAP showed partial unfolding of the peptide changes in a wide pH (3 to 11) and temperature (25 to 95°C) ranges, although it might not reach complete unfolding at 95°C, suggesting a high conformational stability. This peptide also showed a conformational transition with a partial α-helical fold in water and a full α-helical core in SDS and TFE environments. These results were corroborated by spectral data measured at 222 nm and by 50 ns dynamic simulation. In conclusion, data reported here show that Pa-MAP is a potential candidate for drug design against pathogenic microorganisms due to its structural stability and wide activity against a range of targets.


Subject(s)
Alanine/chemistry , Flounder/metabolism , Peptides/chemistry , Peptides/pharmacology , Animals , Caco-2 Cells , Candida/drug effects , Cell Line , Erythrocytes/drug effects , HCT116 Cells , Humans , Staphylococcus aureus/drug effects , Trichophyton/drug effects
15.
Comp Biochem Physiol A Mol Integr Physiol ; 151(3): 329-335, 2008 Nov.
Article in English | MEDLINE | ID: mdl-17409003

ABSTRACT

Three dermaseptins, DS 01, DD K, and DD L, were compared with respect to their structural features and interactions with liposomes. Circular dichroic spectra at alcohols of different chain lengths revealed that DS 01 has the higher helicogenic potential in hydrophobic media. Binding of DS 01, DD K, and DD L to liposomes induced significant blue shifts of the emission spectra of the single tryptophan located at position 3 of all sequences indicating association of the peptides with bilayers. Kinetics evaluation of atomic force microscopy images evidenced the strong fusogenic activity of DS 01 whereas DD K and DD L showed increased lytic activities.


Subject(s)
Amphibian Proteins/chemistry , Amphibian Proteins/metabolism , Antimicrobial Cationic Peptides/chemistry , Antimicrobial Cationic Peptides/metabolism , Liposomes/metabolism , Membrane Fusion/physiology , Alcohols/pharmacology , Amino Acid Sequence , Animals , Anura , Circular Dichroism , Kinetics , Microscopy, Atomic Force , Microscopy, Fluorescence , Molecular Sequence Data , Protein Binding , Protein Structure, Secondary/drug effects , Structure-Activity Relationship
16.
Biophys J ; 92(5): 1638-50, 2007 Mar 01.
Article in English | MEDLINE | ID: mdl-17142290

ABSTRACT

The structure of the Bowman-Birk inhibitor from Vigna unguiculata seeds (BTCI) in complex with beta-trypsin was solved and refined at 1.55 A to a crystallographic R(factor) of 0.154 and R(free) of 0.169, and represents the highest resolution for a Bowman-Birk inhibitor structure to date. The BTCI-trypsin interface is stabilized by hydrophobic contacts and hydrogen bonds, involving two waters and a polyethylene glycol molecule. The conformational rigidity of the reactive loop is characteristic of the specificity against trypsin, while hydrophobicity and conformational mobility of the antichymotryptic subdomain confer the self-association tendency, indicated by atomic force microscopy, of BTCI in complex and free form. When BTCI is in binary complexes, no significant differences in inhibition constants for producing a ternary complex with trypsin and chymotrypsin were detected. These results indicate that binary complexes present no conformational change in their reactive site for both enzymes confirming that these sites are structurally independent. The free chymotrypsin observed in the atomic force microscopy assays, when the ternary complex is obtained from BTCI-trypsin binary complex and chymotrypsin, could be related more to the self-association tendency between chymotrypsin molecules and the flexibility of the reactive site for this enzyme than to binding-related conformational changes.


Subject(s)
Fabaceae/chemistry , Plant Proteins/chemistry , Seeds/chemistry , Trypsin Inhibitors/chemistry , Trypsin/chemistry , Amino Acid Sequence , Chymotrypsin/chemistry , Chymotrypsin/metabolism , Hydrogen Bonding , Hydrophobic and Hydrophilic Interactions , Microscopy, Atomic Force , Models, Molecular , Molecular Sequence Data , Plant Proteins/metabolism , Protein Binding , Protein Structure, Tertiary , Trypsin/metabolism , Trypsin Inhibitors/metabolism
17.
Proteins ; 61(3): 642-8, 2005 Nov 15.
Article in English | MEDLINE | ID: mdl-16161117

ABSTRACT

Several methods have been applied to study protein-protein interaction from structural and thermodynamic point of view. The present study reveals that atomic force microscopy (AFM), molecular modeling, and docking approaches represent alternative methods offering new strategy to investigate structural aspects in oligomerization process of proteinase inhibitors. The topography of the black-eyed pea trypsin/chymotrypsin inhibitor (BTCI) was recorded by AFM and compared with computational rigid-bodies docking approaches. Multimeric states of BTCI identified from AFM analysis showed globular-ellipsoidal shapes. Monomers, dimers, trimers, and hexamers were the most prominent molecular arrays observed in AFM images as evaluated by molecular volume calculations and corroborated by in silico docking and theoretical approaches. We therefore propose that BTCI adopts stable and well-packed self-assembled states in monomer-dimer-trimer-hexamer equilibrium. Although there are no correlation between specificity and packing efficiency among proteinases and proteinase inhibitors, the AFM and docked BTCI analyses suggest that these assemblies may exist in situ to play their potential function in oligomerization process.


Subject(s)
Microscopy, Atomic Force , Trypsin Inhibitor, Bowman-Birk Soybean/chemistry , Trypsin Inhibitor, Bowman-Birk Soybean/ultrastructure , Computational Biology , Dimerization , Protein Structure, Quaternary , Reproducibility of Results , Structure-Activity Relationship
18.
Fungal Genet Biol ; 42(5): 434-43, 2005 May.
Article in English | MEDLINE | ID: mdl-15809007

ABSTRACT

A gene encoding the entire highly expressed protein previously identified in the proteome of Paracoccidioides brasiliensis yeast cells as PbY20 has been isolated. The pby20 sequence reveals an open reading frame of 1364bp and a deduced amino acid sequence of 203 residues, which shows high identity to benzoquinone reductase from Phanerochaete chrysosporium (72.0%), Saccharomyces cerevisiae Ycp4 (65%), and Schizosaccharomyces pombe p25 (59%), and to allergens from Alternaria alternata Alt a7 (70%) and from Cladosporium herbarum, Cla h5 (68%). Low levels of the pby20 transcript in the mycelium and highly induced ones in infective yeast cells during the transition of this dimorphic fungus indicate transcriptional control of its expression. PbY20 was immunologically detected only in yeast cell extract, suggesting an important role in cell differentiation or even in the maintenance of the yeast form. Immunoelectron microscopy showed that PbY20 is found inside large granules and vacuoles, in the nucleus, and also in the cytoplasm. Through sequence comparisons analysis and fluorescence emission assay, PbY20 was recognized as a member of the flavin mononucleotide flavodoxin-like WrbA family, which are involved in heat shock and oxidative stress in biological systems. Assuming that PbY20 belongs to this family, a similar role could be attributed to this protein.


Subject(s)
Fungal Proteins/chemistry , Fungal Proteins/genetics , Paracoccidioides/genetics , Allergens/genetics , Alternaria/genetics , Amino Acid Sequence , Base Sequence , Cell Nucleus/chemistry , Cladosporium/genetics , Cytoplasmic Granules , Cytoplasmic Vesicles/chemistry , DNA, Fungal/chemistry , DNA, Fungal/isolation & purification , Flavodoxin/chemistry , Flavodoxin/genetics , Gene Expression Regulation, Fungal , Molecular Sequence Data , Open Reading Frames , Oxidoreductases/genetics , Phanerochaete/genetics , RNA, Fungal/analysis , RNA, Messenger/analysis , Saccharomyces cerevisiae/genetics , Schizosaccharomyces/genetics , Sequence Analysis, DNA , Sequence Homology, Amino Acid
19.
Biophys J ; 88(5): 3509-17, 2005 May.
Article in English | MEDLINE | ID: mdl-15764660

ABSTRACT

The thermal stability of a Schizolobium parahyba chymotrypsin inhibitor (SPCI) as a function of pH has been investigated using fluorescence, circular dichroism, and differential scanning calorimetry (DSC). The thermodynamic parameters derived from all methods are remarkably similar and strongly suggest the high stability of SPCI under a wide range of pH. The transition temperature (T(m)) values ranging from 57 to 85.3 degrees C at acidic, neutral, and alkaline pH are in good agreement with proteins from mesophilic and thermophilic organisms and corroborate previous data regarding the thermal stability of SPCI. All methods gave transitions curves adequately fitted to a two-state model of the unfolding process as judged by the cooperative ratio between the van't Hoff and the calorimetric enthalpy energies close to unity in all of the pH conditions analyzed, except at pH 3.0. Thermodynamic analysis using all these methods reveals that SPCI is thermally a highly stable protein, over the wide range of pH from 3.0 to 8.8, exhibiting high stability in the pH region of 5.0-7.0. The corresponding maximum stabilities, DeltaG(25), were obtained at pH 7.0 with values of 15.4 kcal mol(-1) (combined fluorescence and circular dichroism data), and 15.1 kcal mol(-1) (DSC), considering a DeltaC(p) of 1.72 +/- 0.24 kcal mol(-1) K(-1). The low histidine content ( approximately 1.7%) and the high acidic residue content ( approximately 22.5%) suggests a flat pH dependence of thermal stability in the region 2.0-8.8 and that the decrease in thermal stability at low pH can be due to the differences in pK values of the acidic groups.


Subject(s)
Chymotrypsin/antagonists & inhibitors , Plant Proteins/chemistry , Calorimetry, Differential Scanning , Circular Dichroism , Histidine/chemistry , Hot Temperature , Hydrogen-Ion Concentration , Plants/metabolism , Protein Denaturation , Protein Folding , Seeds , Spectrometry, Fluorescence , Temperature , Thermodynamics , Ultraviolet Rays
20.
Phytochemistry ; 65(7): 793-9, 2004 Apr.
Article in English | MEDLINE | ID: mdl-15081278

ABSTRACT

Schizolobium parahyba chymotrypsin inhibitor (SPCI) was completely purified as a single polypeptide chain with two disulfide bonds, by TCA precipitation and ion exchange chromatography. This purification method is faster and more efficient than that previously reported: SPCI is stable from pH 2 to 12 at 25 degrees C, and is highly specific for chymotrypsin at pH 7-12. It weakly inhibits elastase and has no significant inhibitory effect against trypsin and alpha-amylase. SPCI is a thermostable protein and resists thermolysin digestion up to 70 degrees C.


Subject(s)
Chymotrypsin/antagonists & inhibitors , Plant Proteins/chemistry , Rosales/chemistry , Serine Proteinase Inhibitors/chemistry , Chromatography, Ion Exchange/methods , Drug Stability , Electrophoresis, Polyacrylamide Gel , Hydrogen-Ion Concentration , Plant Proteins/isolation & purification , Plant Proteins/metabolism , Plant Proteins/pharmacology , Seeds/chemistry , Serine Proteinase Inhibitors/isolation & purification , Serine Proteinase Inhibitors/metabolism , Serine Proteinase Inhibitors/pharmacology , Spectrometry, Fluorescence , Substrate Specificity , Thermolysin/metabolism
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