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1.
Immunity ; 38(6): 1187-97, 2013 Jun 27.
Artigo em Inglês | MEDLINE | ID: mdl-23791646

RESUMO

The small intestine harbors a substantial number of commensal bacteria and is sporadically invaded by pathogens, but the response to these microorganisms is fundamentally different. We identified a discriminatory sensor by using Toll-like receptor 3 (TLR3). Double-stranded RNA (dsRNA) of one major commensal species, lactic acid bacteria (LAB), triggered interferon-ß (IFN-ß) production, which protected mice from experimental colitis. The LAB-induced IFN-ß response was diminished by dsRNA digestion and treatment with endosomal inhibitors. Pathogenic bacteria contained less dsRNA and induced much less IFN-ß than LAB, and dsRNA was not involved in pathogen-induced IFN-ß induction. These results identify TLR3 as a sensor to small intestinal commensal bacteria and suggest that dsRNA in commensal bacteria contributes to anti-inflammatory and protective immune responses.


Assuntos
Colite/prevenção & controle , Enterococcaceae/imunologia , Infecções por Bactérias Gram-Positivas/imunologia , Interferon beta/metabolismo , Lactobacillus/imunologia , Macrófagos/imunologia , Receptor 3 Toll-Like/metabolismo , Animais , Células Cultivadas , Colite/etiologia , Colite/imunologia , Colite/microbiologia , Modelos Animais de Doenças , Enterococcaceae/patogenicidade , Feminino , Infecções por Bactérias Gram-Positivas/complicações , Infecções por Bactérias Gram-Positivas/microbiologia , Intestinos/imunologia , Intestinos/microbiologia , Macrófagos/microbiologia , Proteínas de Membrana Transportadoras/genética , Camundongos , Camundongos Endogâmicos BALB C , Camundongos Endogâmicos C57BL , Camundongos Mutantes , RNA de Cadeia Dupla/imunologia
2.
Mar Drugs ; 17(8)2019 Jul 29.
Artigo em Inglês | MEDLINE | ID: mdl-31362412

RESUMO

Immunomodulation involves two mechanisms, immunostimulation and immunosuppression. It is a complex mechanism that regulates the pathophysiology and pathogenesis of various diseases affecting the immune system. Immunomodulators can be used as immunostimulators to reduce the side effects of drugs that induce immunosuppression. In this study, we characterized the chemical composition of high molecular weight fucoidan (HMWF) and low molecular weight fucoidan and compared their functions as natural killer (NK) cell-derived immunostimulators in vitro. We also tested the effectiveness of HMWF, which has a relatively high function in vitro, as an immunostimulator in immunosuppressed animal models. In these models, HWMF significantly restored NK cell cytotoxicity and granzyme B release to the control group level. In addition, the expression of interleukin (IL)-1ß, IL-2, IL-4, IL-5, IL-12, interferon (IFN)-γ, and tumor necrosis factor (TNF)-α also increased in the spleen. This study suggests that HMWF acts as an effective immunostimulant under immunosuppressive conditions.


Assuntos
Ciclofosfamida/farmacologia , Tolerância Imunológica/efeitos dos fármacos , Fatores Imunológicos/farmacologia , Polissacarídeos/farmacologia , Undaria/química , Animais , Linhagem Celular , Citocinas/metabolismo , Humanos , Células Matadoras Naturais/efeitos dos fármacos , Células Matadoras Naturais/metabolismo , Camundongos , Camundongos Endogâmicos BALB C , Peso Molecular , Baço/efeitos dos fármacos , Baço/metabolismo
3.
J Biol Chem ; 290(28): 17587-98, 2015 Jul 10.
Artigo em Inglês | MEDLINE | ID: mdl-26001786

RESUMO

Human myosin VIIA (HM7A) is responsible for human Usher syndrome type 1B, which causes hearing and visual loss in humans. Here we studied the regulation of HM7A. The actin-activated ATPase activity of full-length HM7A (HM7AFull) was lower than that of tail-truncated HM7A (HM7AΔTail). Deletion of the C-terminal 40 amino acids and mutation of the basic residues in this region (R2176A or K2179A) abolished the inhibition. Electron microscopy revealed that HM7AFull is a monomer in which the tail domain bends back toward the head-neck domain to form a compact structure. This compact structure is extended at high ionic strength or in the presence of Ca(2+). Although myosin VIIA has five isoleucine-glutamine (IQ) motifs, the neck length seems to be shorter than the expected length of five bound calmodulins. Supporting this observation, the IQ domain bound only three calmodulins in Ca(2+), and the first IQ motif failed to bind calmodulin in EGTA. These results suggest that the unique IQ domain of HM7A is important for the tail-neck interaction and, therefore, regulation. Cellular studies revealed that dimer formation of HM7A is critical for its translocation to filopodial tips and that the tail domain (HM7ATail) markedly reduced the filopodial tip localization of the HM7AΔTail dimer, suggesting that the tail-inhibition mechanism is operating in vivo. The translocation of the HM7AFull dimer was significantly less than that of the HM7AΔTail dimer, and R2176A/R2179A mutation rescued the filopodial tip translocation. These results suggest that HM7A can transport its cargo molecules, such as USH1 proteins, upon release of the tail-dependent inhibition.


Assuntos
Miosinas/química , Miosinas/metabolismo , Sequência de Aminoácidos , Sítios de Ligação , Calmodulina/metabolismo , Células HeLa , Humanos , Microscopia Eletrônica de Transmissão , Proteínas Motores Moleculares/química , Proteínas Motores Moleculares/genética , Proteínas Motores Moleculares/metabolismo , Dados de Sequência Molecular , Mutagênese Sítio-Dirigida , Miosina VIIa , Miosinas/genética , Multimerização Proteica , Estrutura Terciária de Proteína , Proteínas Recombinantes de Fusão/química , Proteínas Recombinantes de Fusão/genética , Proteínas Recombinantes de Fusão/metabolismo , Deleção de Sequência , Homologia de Sequência de Aminoácidos , Síndromes de Usher/genética , Síndromes de Usher/metabolismo
4.
Proc Natl Acad Sci U S A ; 110(30): E2829-37, 2013 Jul 23.
Artigo em Inglês | MEDLINE | ID: mdl-23832782

RESUMO

Pathogenic and commensal bacteria that experience limited nutrient availability in their host have evolved sophisticated systems to catabolize the mucin sugar N-acetylneuraminic acid, thereby facilitating their survival and colonization. The correct function of the associated catabolic machinery is particularly crucial for the pathogenesis of enteropathogenic bacteria during infection, although the molecular mechanisms involved with the regulation of the catabolic machinery are unknown. This study reports the complex structure of NanR, a repressor of the N-acetylneuraminate (nan) genes responsible for N-acetylneuraminic acid catabolism, and its regulatory ligand, N-acetylmannosamine 6-phosphate (ManNAc-6P), in the human pathogenic bacterium Vibrio vulnificus. Structural studies combined with electron microscopic, biochemical, and in vivo analysis demonstrated that NanR forms a dimer in which the two monomers create an arched tunnel-like DNA-binding space, which contains positively charged residues that interact with the nan promoter. The interaction between the NanR dimer and DNA is alleviated by the ManNAc-6P-mediated relocation of residues in the ligand-binding domain of NanR, which subsequently relieves the repressive effect of NanR and induces the transcription of the nan genes. Survival studies in which mice were challenged with a ManNAc-6P-binding-defective mutant strain of V. vulnificus demonstrated that this relocation of NanR residues is critical for V. vulnificus pathogenesis. In summary, this study presents a model of the mechanism that regulates sialic acid catabolism via NanR in V. vulnificus.


Assuntos
Ácido N-Acetilneuramínico/metabolismo , Proteínas Repressoras/metabolismo , Transcrição Gênica , Vibrio vulnificus/metabolismo , Microscopia Eletrônica , Modelos Moleculares
5.
Nitric Oxide ; 47: 1-9, 2015 May 01.
Artigo em Inglês | MEDLINE | ID: mdl-25683505

RESUMO

Ovalbumin (OVA), one of the members of the serpin-superfamily, is the major protein in chicken eggs. Many studies have demonstrated the polymerization ability of OVA but the detailed molecular mechanisms demonstrating its conformational changes accompanying fibril formation are still unclear. This study revealed nitric oxide (NO) induced conformational changes and oligomerization of egg white OVA, resulting in polymerized fibrils. Electron microscopic analysis showed that NO treatment to OVA under mild acidic condition resulted in morphological changes, producing structures similar to the long protein fibrils found in egg white. Spectroscopic analysis and mass spectrometry found that NO-treated OVA contains increased number of ß-sheet, indicating transition from α-helixes to ß-sheets, and S-nitrosylation of OVA cysteine residue 367. Structural modeling showed that S-nitrosocysteine, Cys367NO, is located in the amyloidogenic core region of the C-terminal region, nearby the N-terminal core region where the α-to-ß transition is induced. Such results provide a potential mechanism for non-disease-associated fibril formation of OVA.


Assuntos
Clara de Ovo/química , Óxido Nítrico/química , Ovalbumina/química , Animais , Galinhas , Modelos Moleculares , Estrutura Secundária de Proteína
6.
Biochemistry ; 53(11): 1858-69, 2014 Mar 25.
Artigo em Inglês | MEDLINE | ID: mdl-24593046

RESUMO

The crystal structure of metagenome-derived LC-cutinase with polyethylene terephthalate (PET)-degrading activity was determined at 1.5 Å resolution. The structure strongly resembles that of Thermobifida alba cutinase. Ser165, Asp210, and His242 form the catalytic triad. Thermal denaturation and guanidine hydrochloride (GdnHCl)-induced unfolding of LC-cutinase were analyzed at pH 8.0 by circular dichroism spectroscopy. The midpoint of the transition of the thermal denaturation curve, T1/2, and that of the GdnHCl-induced unfolding curve, Cm, at 30 °C were 86.2 °C and 4.02 M, respectively. The free energy change of unfolding in the absence of GdnHCl, ΔG(H2O), was 41.8 kJ mol(-1) at 30 °C. LC-cutinase unfolded very slowly in GdnHCl with an unfolding rate, ku(H2O), of 3.28 × 10(-6) s(-1) at 50 °C. These results indicate that LC-cutinase is a kinetically robust protein. Nevertheless, the optimal temperature for the activity of LC-cutinase toward p-nitrophenyl butyrate (50 °C) was considerably lower than the T1/2 value. It increased by 10 °C in the presence of 1% polyethylene glycol (PEG) 1000. It also increased by at least 20 °C when PET was used as a substrate. These results suggest that the active site is protected from a heat-induced local conformational change by binding of PEG or PET. LC-cutinase contains one disulfide bond between Cys275 and Cys292. To examine whether this disulfide bond contributes to the thermodynamic and kinetic stability of LC-cutinase, C275/292A-cutinase without this disulfide bond was constructed. Thermal denaturation studies and equilibrium and kinetic studies of the GdnHCl-induced unfolding of C275/292A-cutinase indicate that this disulfide bond contributes not only to the thermodynamic stability but also to the kinetic stability of LC-cutinase.


Assuntos
Hidrolases de Éster Carboxílico/química , Metagenoma/genética , Streptomyces/enzimologia , Termodinâmica , Sítios de Ligação/genética , Hidrolases de Éster Carboxílico/metabolismo , Cristalografia por Raios X , Estabilidade Enzimática , Cinética , Polietilenotereftalatos/química , Desnaturação Proteica , Streptomyces/genética
7.
J Struct Biol ; 187(2): 119-128, 2014 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-24972277

RESUMO

RNase H1 from extreme halophilic archaeon Halobacterium sp. NRC-1 (Halo-RNase H1) requires ⩾2M NaCl, ⩾10mM MnCl2, or ⩾300mM MgCl2 for folding. To understand the structural basis for this salt-dependent folding of Halo-RNase H1, the crystal structure of Halo-RNase H1 was determined in the presence of 10mM MnCl2. The structure of Halo-RNase H1 highly resembles those of metagenome-derived LC11-RNase H1 and Sulfolobus tokodaii RNase H1 (Sto-RNase H1), except that it contains two Mn(2+) ions at the active site and has three bi-aspartate sites on its surface. To examine whether negative charge repulsion at these sites are responsible for low-salt denaturation of Halo-RNase H1, a series of the mutant proteins of Halo-RNase H1 at these sites were constructed. The far-UV CD spectra of these mutant proteins measured in the presence of various concentrations of NaCl suggest that these mutant proteins exist in an equilibrium between a partially folded state and a folded state. However, the fraction of the protein in a folded state is nearly 0% for the active site mutant, 40% for the bi-aspartate site mutant, and 70% for the mutant at both sites in the absence of salt. The active site mutant requires relatively low concentration (∼0.5M) of salt for folding. These results suggest that suppression of negative charge repulsion at both active and bi-aspartate sites by salt is necessary to yield a folded protein.


Assuntos
Conformação Proteica/efeitos dos fármacos , Dobramento de Proteína/efeitos dos fármacos , Ribonuclease H/química , Domínio Catalítico/efeitos dos fármacos , Cloretos/química , Cloretos/farmacologia , Halobacterium/efeitos dos fármacos , Cloreto de Magnésio/química , Cloreto de Magnésio/farmacologia , Compostos de Manganês/química , Compostos de Manganês/farmacologia , Mutação , Ribonuclease H/efeitos dos fármacos , Cloreto de Sódio/química , Cloreto de Sódio/farmacologia
8.
J Immunol ; 188(3): 1108-16, 2012 Feb 01.
Artigo em Inglês | MEDLINE | ID: mdl-22198947

RESUMO

The intestinal immune system is constantly challenged by commensal bacteria; therefore, it must maintain quiescence via several regulatory mechanisms. Although intestinal macrophages (Ms) have been implicated in repression of excessive inflammation, it remains unclear how their functions are regulated during inflammation. In this study, we report that semaphorin 7A (Sema7A), a GPI-anchored semaphorin expressed in intestinal epithelial cells (IECs), induces IL-10 production by intestinal Mϕs to regulate intestinal inflammation. Sema7A-deficient mice showed severe signs of dextran sodium sulfate-induced colitis due to reduced intestinal IL-10 levels. We further identified CX3CR1(+)MHC class II(int)F4/80(hi)CD11b(hi) Mϕs as the main producers of IL-10 via αvß1 integrin in response to Sema7A. Notably, Sema7A was predominantly expressed on the basolateral side of IECs, and its expression pattern was responsible for protective effects against dextran sodium sulfate-induced colitis and IL-10 production by Mϕs during interactions between IECs and Mϕs. Furthermore, we determined that the administration of recombinant Sema7A proteins ameliorated the severity of colitis, and these effects were diminished by IL-10-blocking Abs. Therefore, our findings not only indicate that Sema7A plays crucial roles in suppressing intestinal inflammation through αvß1 integrin, but also provide a novel mode of IL-10 induction via interactions between IECs and Mϕs.


Assuntos
Antígenos CD/fisiologia , Colite/patologia , Receptores de Vitronectina/fisiologia , Semaforinas/fisiologia , Animais , Comunicação Celular , Colite/etiologia , Células Epiteliais/metabolismo , Interleucina-10/biossíntese , Interleucina-10/genética , Intestinos , Macrófagos , Camundongos
9.
J Struct Biol ; 182(2): 144-54, 2013 May.
Artigo em Inglês | MEDLINE | ID: mdl-23500886

RESUMO

LC11-RNase H1 is a Sulfolobus tokodaii RNase H1 (Sto-RNase H1) homologue isolated by metagenomic approach. In this study, the crystal structure of LC11-RNase H1 in complex with an RNA/DNA substrate was determined. Unlike Bacillus halodurans RNase H1 without hybrid binding domain (HBD) (Bh-RNase HC) and human RNase H1 without HBD (Hs-RNase HC), LC11-RNase H1 interacts with four non-consecutive 2'-OH groups of the RNA strand. The lack of interactions with four consecutive 2'-OH groups leads to a dramatic decrease in the ability of LC11-RNase H1 to cleave the DNA-RNA-DNA/DNA substrate containing four ribonucleotides as compared to those to cleave the substrates containing five and six ribonucleotides. The interaction of LC11-RNase H1 with the DNA strand is also different from those of Bh-RNase HC and Hs-RNase HC. Beside the common phosphate-binding pocket, LC11-RNase H1 has a unique DNA-binding channel. Furthermore, the active-site residues of LC11-RNase H1 are located farther away from the scissile phosphate group than those of Bh-RNase HC and Hs-RNase HC. Modeling of Sto-RNase H1 in complex with the 14bp RNA/DNA substrate, together with the structure-based mutational analyses, suggest that the ability of Sto-RNase H1 to cleave double-stranded RNA is dependent on the local conformation of the basic residues located at the DNA binding site.


Assuntos
DNA Arqueal/química , Metagenoma/genética , Modelos Moleculares , Conformação Proteica , RNA Arqueal/química , Ribonuclease H/química , Sulfolobus/enzimologia , Cristalização , DNA Arqueal/metabolismo , Plasmídeos/genética , RNA Arqueal/metabolismo , Ribonuclease H/metabolismo , Difração de Raios X
10.
BMC Evol Biol ; 10: 207, 2010 Jul 09.
Artigo em Inglês | MEDLINE | ID: mdl-20615256

RESUMO

BACKGROUND: The unfolding speed of some hyperthermophilic proteins is dramatically lower than that of their mesostable homologs. Ribonuclease HII from the hyperthermophilic archaeon Thermococcus kodakaraensis (Tk-RNase HII) is stabilized by its remarkably slow unfolding rate, whereas RNase HI from the thermophilic bacterium Thermus thermophilus (Tt-RNase HI) unfolds rapidly, comparable with to that of RNase HI from Escherichia coli (Ec-RNase HI). RESULTS: To clarify whether the difference in the unfolding rate is due to differences in the types of RNase H or differences in proteins from archaea and bacteria, we examined the equilibrium stability and unfolding reaction of RNases HII from the hyperthermophilic bacteria Thermotoga maritima (Tm-RNase HII) and Aquifex aeolicus (Aa-RNase HII) and RNase HI from the hyperthermophilic archaeon Sulfolobus tokodaii (Sto-RNase HI). These proteins from hyperthermophiles are more stable than Ec-RNase HI over all the temperature ranges examined. The observed unfolding speeds of all hyperstable proteins at the different denaturant concentrations studied are much lower than those of Ec-RNase HI, which is in accordance with the familiar slow unfolding of hyperstable proteins. However, the unfolding rate constants of these RNases H in water are dispersed, and the unfolding rate constant of thermophilic archaeal proteins is lower than that of thermophilic bacterial proteins. CONCLUSIONS: These results suggest that the nature of slow unfolding of thermophilic proteins is determined by the evolutionary history of the organisms involved. The unfolding rate constants in water are related to the amount of buried hydrophobic residues in the tertiary structure.


Assuntos
Evolução Molecular , Dobramento de Proteína , Ribonuclease H/metabolismo , Proteínas Arqueais/genética , Proteínas Arqueais/metabolismo , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Dicroísmo Circular , Estabilidade Proteica , Estrutura Terciária de Proteína , Ribonuclease H/genética , Sulfolobus/enzimologia , Sulfolobus/genética , Temperatura , Termodinâmica , Thermotoga maritima/enzimologia , Thermotoga maritima/genética
11.
FEBS J ; 275(10): 2632-43, 2008 May.
Artigo em Inglês | MEDLINE | ID: mdl-18422647

RESUMO

The crystal structure of glycerol kinase from the hyperthermophilic archaeon Thermococcus kodakaraensis (Tk-GK) in a dimeric form was determined at a resolution of 2.4 A. This is the first crystal structure of a hyperthermophilic glycerol kinase. The overall structure of the Tk-GK dimer is very similar to that of the Escherichia coli glycerol kinase (Ec-GK) dimer. However, two dimers of Ec-GK can associate into a tetramer with a twofold axis, whereas those of Tk-GK cannot. This may be the reason why Tk-GK is not inhibited by fructose 1,6-bisphosphate, because the fructose 1,6-bisphosphate binding site is produced only when a tetrameric structure is formed. Differential scanning calorimetry analyses indicate that Tk-GK is a highly thermostable protein with a melting temperature (T(m)) of 105.4 degrees C for the major transition. This value is higher than that of Ec-GK by 34.1 degrees C. Comparison of the crystal structures of Tk-GK and Ec-GK indicate that there is a marked difference in the number of ion pairs in the alpha16 helix. Four ion pairs, termed IP1-IP4, are formed in this helix in the Tk-GK structure. To examine whether these ion pairs contribute to the stabilization of Tk-GK, four Tk-GK and four Ec-GK derivatives with reciprocal mutations at the IP1-IP4 sites were constructed. The determination of their stabilities indicates that the removal of each ion pair does not affect the stability of Tk-GK significantly, whereas the mutations designed to introduce one of these ion pairs stabilize or destabilize Ec-GK considerably. These results suggest that the ion pairs in the alpha16 helix contribute to the stabilization of Tk-GK in a cooperative manner.


Assuntos
Proteínas Arqueais/química , Glicerol Quinase/química , Conformação Proteica , Thermococcus/enzimologia , Sequência de Aminoácidos , Proteínas Arqueais/genética , Proteínas Arqueais/metabolismo , Sítios de Ligação , Cristalografia por Raios X , Dimerização , Estabilidade Enzimática , Proteínas de Escherichia coli/química , Glicerol Quinase/genética , Glicerol Quinase/metabolismo , Modelos Moleculares , Dados de Sequência Molecular , Subunidades Proteicas/química , Subunidades Proteicas/genética , Subunidades Proteicas/metabolismo , Alinhamento de Sequência , Temperatura
12.
FEBS Lett ; 581(26): 5060-4, 2007 Oct 30.
Artigo em Inglês | MEDLINE | ID: mdl-17923123

RESUMO

The crystal structure of a family I.3 lipase from Pseudomonas sp. MIS38 in a closed conformation was determined at 1.5A resolution. This structure highly resembles that of Serratia marcescens LipA in an open conformation, except for the structures of two lids. Lid1 is anchored by a Ca2+ ion (Ca1) in an open conformation, but lacks this Ca1 site and greatly changes its structure and position in a closed conformation. Lid2 forms a helical hairpin in an open conformation, but does not form it and covers the active site in a closed conformation. Based on these results, we discuss on the lid-opening mechanism.


Assuntos
Proteínas de Bactérias/química , Cálcio/química , Lipase/química , Pseudomonas/enzimologia , Sítios de Ligação , Cristalografia por Raios X , Conformação Proteica
13.
J Biochem ; 142(4): 507-16, 2007 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-17761696

RESUMO

Using the information from the genome projects, recent comparative studies of thermostable proteins have revealed a certain trend of amino acid composition in which polar residues are scarce and charged residues are rich on the protein surface. To clarify experimentally the effect of the amino acid composition of surface residues on the thermostability of Escherichia coli Ribonuclease HI (RNase HI), we constructed six variants in which five to eleven polar residues were replaced by charged residues (5C, 7Ca, 7Cb, 9Ca, 9Cb and 11C). The thermal denaturation experiments indicated that all of the variant proteins are 3.2-10.1 degrees C in Tm less stable than the wild proteins. The crystal structures of resultant protein variants 7Ca, 7Cb, 9Ca and 11C closely resemble that of E. coli RNase HI in their global fold, and several different hydrogen bonding and ion-pair interactions are formed by the mutations. Comparison of the crystal structures of these variant proteins with that of E. coli RNase HI reveals that thermal destabilization is apparently related to electrostatic repulsion of the charged residues with neighbours. This result suggests that charged residues of natural thermostable proteins are strictly posted on the surface with optimal interactions and without repulsive interactions.


Assuntos
Aminoácidos/química , Aminoácidos/metabolismo , Modelos Moleculares , Ribonuclease H/química , Ribonuclease H/metabolismo , Termodinâmica , Sequência de Aminoácidos , Substituição de Aminoácidos/genética , Aminoácidos/genética , Cristalografia por Raios X , Estabilidade Enzimática , Escherichia coli/enzimologia , Escherichia coli/genética , Variação Genética , Dados de Sequência Molecular , Ribonuclease H/genética , Eletricidade Estática , Propriedades de Superfície
14.
Artigo em Inglês | MEDLINE | ID: mdl-17277457

RESUMO

Glycerol kinase from the hyperthermophilic archaeon Thermococcus kodakaraensis was crystallized and preliminary crystallographic studies of the crystals were performed. Crystals were grown at 293 K by the sitting-drop vapour-diffusion method. Native X-ray diffraction data were collected to 2.4 A resolution using synchrotron radiation at station BL44XU of SPring-8. The crystal belongs to the rhombohedral space group R3, with unit-cell parameters a = b = 217.48, c = 66.48 A. Assuming the presence of two molecules in the asymmetric unit, the V(M) value was 2.7 A(3) Da(-1) and the solvent content was 54.1%. The protein was also cocrystallized with substrates and diffraction data were collected to 2.7 A resolution.


Assuntos
Proteínas Arqueais/química , Glicerol Quinase/química , Thermococcus/enzimologia , Trifosfato de Adenosina/química , Trifosfato de Adenosina/metabolismo , Proteínas Arqueais/metabolismo , Cristalização , Cristalografia por Raios X , Eletroforese em Gel de Poliacrilamida , Estabilidade Enzimática , Glicerol/química , Glicerol/metabolismo , Glicerol Quinase/metabolismo , Temperatura Alta
15.
Artigo em Inglês | MEDLINE | ID: mdl-17329810

RESUMO

A family I.3 lipase from Pseudomonas sp. MIS38 was secreted from Escherichia coli cells to the external medium, purified and crystallized and preliminary crystallographic studies were performed. The crystal was grown at 277 K by the hanging-drop vapour-diffusion method. Native X-ray diffraction data were collected to 1.7 A resolution using synchrotron radiation at station BL38B1, SPring-8. The crystal belongs to space group P2(1), with unit-cell parameters a = 48.79, b = 84.06, c = 87.04 A. Assuming the presence of one molecule per asymmetric unit, the Matthews coefficient V(M) was calculated to be 2.73 A3 Da(-1) and the solvent content was 55%.


Assuntos
Proteínas de Bactérias/química , Cristalografia por Raios X , Líquido Extracelular/enzimologia , Lipase/biossíntese , Lipase/química , Proteínas de Bactérias/genética , Escherichia coli/enzimologia , Escherichia coli/genética , Lipase/classificação , Lipase/genética , Família Multigênica , Pseudomonas/enzimologia , Pseudomonas/genética , Proteínas Recombinantes/química , Proteínas Recombinantes/classificação , Proteínas Recombinantes/genética
16.
Artigo em Inglês | MEDLINE | ID: mdl-16880556

RESUMO

Crystallization and preliminary crystallographic studies of type 1 RNase H from the hyperthermophilic archaeon Sulfolobus tokodaii 7 were performed. A crystal was grown at 277 K by the sitting-drop vapour-diffusion method. Native X-ray diffraction data were collected to 1.5 angstroms resolution using synchrotron radiation from station BL41XU at SPring-8. The crystal belongs to space group P4(3), with unit-cell parameters a = b = 39.21, c = 91.15 angstroms. Assuming the presence of one molecule in the asymmetric unit, the Matthews coefficient V(M) was calculated to be 2.1 angstroms3 Da(-1) and the solvent content was 40.5%. The structure of a selenomethionine Sto-RNase HI mutant obtained using a MAD data set is currently being analysed.


Assuntos
Proteínas Arqueais/química , Ribonuclease H/química , Sulfolobus/enzimologia , Proteínas Arqueais/isolamento & purificação , Sequência de Bases , Clonagem Molecular , Cristalização , Primers do DNA , Proteínas Recombinantes/química , Proteínas Recombinantes/isolamento & purificação , Ribonuclease H/genética , Ribonuclease H/isolamento & purificação , Difração de Raios X
17.
J Biotechnol ; 191: 78-85, 2014 Dec 10.
Artigo em Inglês | MEDLINE | ID: mdl-25034434

RESUMO

The crystal structure of ß-galactosidase from Bacillus circulans (BgaC) was determined at 1.8Å resolution. The overall structure of BgaC consists of three distinct domains, which are the catalytic domain with a TIM-barrel structure and two all-ß domains (ABDs). The main-chain fold and steric configurations of the acidic and aromatic residues at the active site were very similar to those of Streptococcus pneumoniae ß(1,3)-galactosidase BgaC in complex with galactose. The structure of BgaC was used for the rational design of a glycosynthase. BgaC belongs to the glycoside hydrolase family 35. The essential nucleophilic amino acid residue has been identified as glutamic acid at position 233 by site-directed mutagenesis. Construction of the active site mutant BgaC-Glu233Gly gave rise to a galactosynthase transferring the sugar moiety from α-d-galactopyranosyl fluoride (αGalF) to different ß-linked N-acetylglucosamine acceptor substrates in good yield (40-90%) with a remarkably stable product formation. Enzymatic syntheses with BgaC-Glu233Gly afforded the stereo- and regioselective synthesis of ß1-3-linked key galactosides like galacto-N-biose or lacto-N-biose.


Assuntos
Amino Açúcares/biossíntese , Bacillus/enzimologia , beta-Galactosidase/química , Amino Açúcares/química , Bacillus/química , Domínio Catalítico , Cristalografia por Raios X , Galactose/química , Mutagênese Sítio-Dirigida , Polissacarídeos/biossíntese , Polissacarídeos/química , Dobramento de Proteína , Especificidade por Substrato
18.
Protein J ; 32(8): 619-25, 2013 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-24264462

RESUMO

The formation of amyloid-like fibrils, which polymerize from various soluble proteins under physiological and acidic conditions, causes a wide range of protein-folding diseases, such as Alzheimer's disease and Parkinson's disease. Fibril assembly in in vitro solutions containing nitric oxide, a free radical that functions as an important signalling molecule involved in numerous physiological and pathological processes, has not been reported. Here, we investigated the protein assembly that occur in thyroglobulin under mildly acidic conditions in the presence of nitric oxide. Solution studies, size exclusion chromatography, dynamic light scattering and analytical ultracentrifugation, demonstrated the size changes of thyroglobulin oligomers after nitric oxide treatment. Following electron microscopic analysis visualized their structural changes and revealed that the molecules can morphologically form polymerized fibril assemblies with a length of 2-5 µm and width 10-100 nm. Taken together, these results provide suggestive evidence for the propensity of forming polymerized thyroglobulin fibrils implying their presence in thyroid cells, which may be related to the onset or progression of thyroid diseases.


Assuntos
Amiloide/metabolismo , Óxido Nítrico/metabolismo , Tireoglobulina/metabolismo , Glândula Tireoide/citologia , Amiloide/química , Amiloide/ultraestrutura , Animais , Bovinos , Cromatografia em Gel , Modelos Moleculares , Desdobramento de Proteína , Tireoglobulina/química , Tireoglobulina/ultraestrutura , Glândula Tireoide/patologia , Ultracentrifugação
19.
FEBS Lett ; 587(9): 1418-23, 2013 May 02.
Artigo em Inglês | MEDLINE | ID: mdl-23523920

RESUMO

The crystal structure of metagenome-derived LC9-RNase H1 was determined. The structure-based mutational analyses indicated that the active site motif of LC9-RNase H1 is altered from DEDD to DEDN. In this motif, the location of the second glutamate residue is moved from αA-helix to ß1-strand immediately next to the first aspartate residue, as in the active site of RNase H2. However, the structure and enzymatic properties of LC9-RNase H1 highly resemble those of RNase H1, instead of RNase H2. We propose that LC9-RNase H1 represents bacterial RNases H1 with an atypical DEDN active site motif, which are evolutionarily distinct from those with a typical DEDD active site motif.


Assuntos
Domínio Catalítico , Metagenoma/genética , Ribonuclease H/química , Ribonuclease H/genética , Motivos de Aminoácidos , Sequência de Aminoácidos , Cristalografia por Raios X , Análise Mutacional de DNA , Evolução Molecular , Humanos , Modelos Moleculares , Dados de Sequência Molecular , Ribonuclease H/metabolismo , Homologia de Sequência de Aminoácidos
20.
FEBS J ; 280(4): 994-1006, 2013 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-23237738

RESUMO

Tk-subtilisin, a subtilisin homologue (Gly70-Gly398) from Thermococcus kodakarensis, is matured from its precursor, Pro-Tk-subtilisin [Tk-subtilisin in a pro form (Gly1-Gly398)], by autoprocessing and degradation of propeptide [Tk-propeptide, a propeptide of Tk-subtilisin (Gly1-Leu69)]. The scissile peptide bond between Leu69 and Gly70 of Pro-Tk-subtilisin is first self-cleaved to produce an inactive Tk-propeptide:Tk-subtilisin complex, in which the C-terminal region of Tk-propeptide binds to the active-site cleft of Tk-subtilisin. Tk-propeptide is then dissociated from Tk-subtilisin and degraded by Tk-subtilisin to release active Tk-subtilisin. To examine whether the mutation of Leu69 to Pro, which is the most unfavourable residue in the P1 position for subtilisins, affects the maturation of Pro-Tk-subtilisin, the Pro-Tk-subtilisin and Tk-propeptide derivatives with this mutation (Pro-L69P and L69P-propeptide) were constructed and characterized. Pro-L69P was autoprocessed more slowly than Pro-Tk-subtilisin. Nevertheless, it matured to Tk-subtilisin more rapidly than Pro-Tk-subtilisin because L69P-propeptide was degraded by Tk-subtilisin more rapidly than Tk-propeptide. The chaperone function and stability of L69P-propeptide were comparable to those of Tk-propeptide, whereas the inhibitory potency and binding ability of L69P-propeptide were considerably reduced compared to those of Tk-propeptide. The crystal structure of the complex between L69P-propeptide and S324A-subtilisin (i.e. a protease activity-defective mutant) revealed that the C-terminal region of L69P-propeptide does not well fit into the substrate binding pockets of Tk-subtilisin (S1-S4 subsites) as a result of a conformational change caused by the mutation. These results suggest that the Leu→Pro mutation accelerates the maturation of Pro-Tk-subtilisin by reducing the binding ability of Tk-propeptide to Tk-subtilisin.


Assuntos
Proteínas de Bactérias/química , Mutação de Sentido Incorreto , Precursores de Proteínas/química , Subtilisinas/química , Thermococcus , Proteínas de Bactérias/genética , Cristalografia por Raios X , Modelos Moleculares , Fragmentos de Peptídeos/química , Fragmentos de Peptídeos/genética , Ligação Proteica , Precursores de Proteínas/genética , Redobramento de Proteína , Estabilidade Proteica , Estrutura Secundária de Proteína , Estrutura Terciária de Proteína , Proteólise , Subtilisinas/genética
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