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1.
Scand J Rheumatol ; 46(3): 180-186, 2017 May.
Artículo en Inglés | MEDLINE | ID: mdl-27440135

RESUMEN

OBJECTIVES: Several rheumatoid arthritis (RA) susceptibility loci have also been found to be associated with psoriatic arthritis (PsA), demonstrating that there is a degree of genetic overlap between various autoimmune diseases. We sought to investigate whether single nucleotide polymorphisms (SNPs) mapping to previously reported RA and/or PsA susceptibility loci, including PLCL2, CCL21, REL, STAT4, CD226, PTPN22, and TYK2, are associated with risk for the two diseases in a genetically homogeneous Greek population. METHOD: This study included 392 RA patients, 126 PsA patients, and 521 healthy age- and sex-matched controls from Greece. Genotyping of the SNPs was performed with Taqman primer/probe sets. Bioinformatic analysis was performed using BlastP, PyMOL, and Maestro and Desmond. RESULTS: A significant association was detected between the GC genotype of rs34536443 (TYK2) in both the PsA and RA cohorts. The C allele of this SNP was associated with PsA only. Evidence for association with PsA was also found for the GG genotype and G allele of the rs10181656 SNP of STAT4. The TC genotype of the rs763361 SNP of CD226 was associated with PsA only. CONCLUSIONS: Genetic overlap between PsA and RA was detected for the rs34536443 SNP of the TYK2 gene within a Greek population. An association of STAT4 (rs10181656) with PsA was confirmed whereas CD226 (rs763361) was associated with PsA but not with RA, in contrast to previous reports. The different findings of this study compared to previous ones highlights the importance of comparative studies that include various ethnic or racial populations.


Asunto(s)
Artritis Psoriásica/genética , Artritis Reumatoide/genética , Población Blanca/genética , Adulto , Anciano , Alelos , Antígenos de Diferenciación de Linfocitos T/genética , Estudios de Casos y Controles , Quimiocina CCL21/genética , Estudios de Cohortes , Femenino , Predisposición Genética a la Enfermedad , Genotipo , Técnicas de Genotipaje , Grecia , Humanos , Péptidos y Proteínas de Señalización Intracelular/genética , Masculino , Persona de Mediana Edad , Modelos Moleculares , Proteínas Oncogénicas v-rel/genética , Polimorfismo de Nucleótido Simple , Proteína Tirosina Fosfatasa no Receptora Tipo 22/genética , Factor de Transcripción STAT4/genética , TYK2 Quinasa/genética
2.
Biochim Biophys Acta ; 1824(8): 947-53, 2012 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-22564768

RESUMEN

The major malaria vector in Sub-Saharan Africa is the Anopheles gambiae mosquito. This species is a key target of malaria control measures. Mosquitoes find humans primarily through olfaction, yet the molecular mechanisms associated with host-seeking behavior remain largely unknown. To further understand the functionality of A. gambiae odorant binding protein 1 (AgamOBP1), we combined in silico protein structure modeling and site-directed mutagenesis to generate 16 AgamOBP1 protein analogues containing single point mutations of interest. Circular dichroism (CD) and ligand-binding assays provided data necessary to probe the effects of the point mutations on ligand binding and the overall structure of AgamOBP1. Far-UV CD spectra of mutated AgamOBP1 variants displayed both substantial decreases to ordered α-helix structure (up to22%) and increases to disordered α-helix structure(up to 15%) with only minimal changes in random coil (unordered) structure. In mutations Y54A, Y122A and W114Q, aromatic side chain removal from the binding site significantly reduced N-phenyl-1-naphthylamine binding. Several non-aromatic mutations (L15T, L19T, L58T, L58Y, M84Q, M84K, H111A, Y122A and L124T) elicited changes to protein conformation with subsequent effects on ligand binding. This study provides empirical evidence for the in silico predicted functions of specific amino acids in AgamOBP1 folding and ligand binding characteristics.


Asunto(s)
Anopheles/química , Proteínas de Insectos/química , Modelos Moleculares , Receptores Odorantes/química , 1-Naftilamina/análogos & derivados , Secuencia de Aminoácidos , Animales , Anopheles/genética , Sitios de Unión , Dicroismo Circular , Proteínas de Insectos/genética , Ligandos , Datos de Secuencia Molecular , Mutagénesis Sitio-Dirigida , Mutación Puntual , Receptores Odorantes/genética
3.
Cell Mol Life Sci ; 69(2): 283-97, 2012 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-21671117

RESUMEN

Insect odorant binding proteins (OBPs) are the first components of the olfactory system to encounter and bind attractant and repellent odors emanating from various sources for presentation to olfactory receptors, which trigger relevant signal transduction cascades culminating in specific physiological and behavioral responses. For disease vectors, particularly hematophagous mosquitoes, repellents represent important defenses against parasitic diseases because they effect a reduction in the rate of contact between the vectors and humans. OBPs are targets for structure-based rational approaches for the discovery of new repellent or other olfaction inhibitory compounds with desirable features. Thus, a study was conducted to characterize the high resolution crystal structure of an OBP of Anopheles gambiae, the African malaria mosquito vector, in complex with N,N-diethyl-m-toluamide (DEET), one of the most effective repellents that has been in worldwide use for six decades. We found that DEET binds at the edge of a long hydrophobic tunnel by exploiting numerous non-polar interactions and one hydrogen bond, which is perceived to be critical for DEET's recognition. Based on the experimentally determined affinity of AgamOBP1 for DEET (K (d) of 31.3 µΜ) and our structural data, we modeled the interactions for this protein with 29 promising leads reported in the literature to have significant repellent activities, and carried out fluorescence binding studies with four highly ranked ligands. Our experimental results confirmed the modeling predictions indicating that structure-based modeling could facilitate the design of novel repellents with enhanced binding affinity and selectivity.


Asunto(s)
Anopheles/metabolismo , DEET/química , Diseño de Fármacos , Repelentes de Insectos/química , Receptores Odorantes/química , Animales , Anopheles/efectos de los fármacos , Anopheles/genética , DEET/farmacología , Femenino , Enlace de Hidrógeno , Repelentes de Insectos/farmacología , Masculino , Modelos Moleculares , Conformación Proteica
4.
Lupus ; 20(5): 501-6, 2011 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-21543514

RESUMEN

Autoimmune diseases affect approximately 5% of the population, but much work remains to define the genetic risk factors and pathogenic mechanisms underlying these conditions. There is accumulating evidence that common genetic factors might predispose to multiple autoimmune disorders. Systemic lupus erythematosus (SLE) and rheumatoid arthritis (RA) are complex autoimmune disorders with multiple susceptibility genes. The functional R620W (C1858T) polymorphism of the protein tyrosine phosphatase non-receptor type 22 (PTPN22) gene, a member of the PTPs that negatively regulate T-cell activation, has been recently associated with susceptibility to various autoimmune diseases. The aim of this study was to assess whether the C1858T polymorphism of PTPN22 also confers increased risk for SLE and RA in the genetically homogeneous population of Crete. It was found that the minor T allele of the PTPN22 C1858T SNP was more common in SLE patients than in control individuals (odds ratio [OR] = 1.91, 95% confidence interval [CI] = 1.11 to 3.9, p = 0.017). No significant difference was observed in the frequency of this allele when RA patients were compared with controls (OR = 1.14, 95% CI = 0.65 to 1.9, p = 0.64). Although the PTPN22 1858 T allele is found at decreased frequency in Southern Europe, including Crete, an association was found between this allele and SLE in the population studied.


Asunto(s)
Artritis Reumatoide/genética , Lupus Eritematoso Sistémico/genética , Proteína Tirosina Fosfatasa no Receptora Tipo 22/genética , Adulto , Estudios de Casos y Controles , Femenino , Predisposición Genética a la Enfermedad , Grecia , Humanos , Masculino , Persona de Mediana Edad , Polimorfismo de Nucleótido Simple
5.
J Cell Biol ; 102(4): 1284-97, 1986 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-3958046

RESUMEN

Metabolic labeling of immature jackbean cotyledons with 14C-amino acids was used to determine the processing steps involved in the assembly of concanavalin A. Pulse-chase experiments and analyses of immunoprecipitated lectin forms indicated a complex series of events involving seven distinct species. The structural relatedness of all of the intermediate species was confirmed by two-dimensional mapping of 125I-tryptic peptides. An initial glycosylated precursor was deglycosylated and cleaved into smaller polypeptides, which subsequently reannealed over a period of 10-27 h. NH2-terminal sequencing of the abundant precursors confirmed that the intact subunit of concanavalin A was formed by the reannealing of two fragments, since the alignment of residues 1-118 and 119-237 was reversed in the final form of the lectin identified in the chase and the precursor first labeled. When the tissue was pulse-chased in the presence of monensin, processing of the glycosylated precursor was inhibited. The weak bases NH4Cl and chloroquine were without effect. Immunocytochemical studies showed that monensin treatment caused the accumulation of immunoreactive material at the cell surface and indicated that the ionophore had induced the secretion of a component normally destined for deposition within the protein bodies. Consideration of the tertiary structure of the glycosylated precursor and mature lectin showed that the entire series of processing events could occur without significant refolding of the initial translational product. Proteolytic events included removal of a peptide from the surface of the precursor molecule that connected the NH2- and COOH-termini of the mature protein. This processing activated the carbohydrate-binding activity of the lectin. The chase data suggest the occurrence of a simultaneous cleavage and formation of a peptide bond, raising the possibility that annealment of the fragments to give rise to the mature subunit involves a transpeptidation event rather than cleavage and subsequent religation.


Asunto(s)
Plantas/metabolismo , Procesamiento Proteico-Postraduccional , Secuencia de Aminoácidos , Aminoácidos/metabolismo , Radioisótopos de Carbono , Concanavalina A/biosíntesis , Concanavalina A/genética , Fabaceae/genética , Fabaceae/metabolismo , Fabaceae/ultraestructura , Cinética , Microscopía Electrónica , Modelos Moleculares , Peso Molecular , Fragmentos de Péptidos/análisis , Lectinas de Plantas , Plantas/genética , Plantas/ultraestructura , Plantas Medicinales , Conformación Proteica
6.
Clin Genet ; 73(2): 152-9, 2008 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-18177465

RESUMEN

Familial Mediterranean Fever (FMF) is an autosomal, recessively inherited disease, characterized by recurrent and short attacks of fever with serosal inflammation that are caused by mutations in MEFV gene that encodes pyrin protein. To date, more than 70 disease-associated mutations have been identified, almost all of them representing missense nucleotide changes. FMF is very common among patients with Mediterranean ancestry, although the exact prevalence is not yet known, Greeks are considered to be at 'intermediate risk'. In the present study, we studied FMF patients in natives of Crete, a population sharing a common genetic and cultural background. The spectrum of MEFV gene mutations in 71 patients as well as 158 healthy controls was studied by performing a molecular analysis focused on the 12 most frequent FMF-associated mutations. We found that 59 of 71 (83.1%) FMF patients had at least one MEFV mutation, five patients were homozygotes and 54 heterozygotes for FMF-associated mutations. No mutations were detected in 12 patients (16.9%). As in high-risk populations, common MEFV mutations were found in Cretan FMF patients, with the M694V being the most penetrant. M694V and M694I mutations were associated with severe phenotypes, with many patients presenting with uncommon clinical manifestations such as erysipelas-like erythema or renal disturbances. Of interest, 20 (37%) of our heterozygous FMF patients presented with a severe phenotype. Population genetics analysis showed an FMF carrier frequency in healthy Cretan population of approximately 6% (1:17) and places Cretans closer to the Western rather than Eastern populations of the Mediterranean basin. Finally, we constructed a three-dimensional model showing the interaction of the PRYSPRY domain of pyrin with caspase-1 onto which we mapped MEFV mutations, classified according to disease severity. In this model, the 'flexible loops' of caspase-1 appear to have no access to some positions that have been previously associated with mild disease, suggesting that alternative pathogenic pathways leading to FMF need to be explored.


Asunto(s)
Proteínas del Citoesqueleto/genética , Fiebre Mediterránea Familiar/genética , Adolescente , Adulto , Caspasa 1/metabolismo , Niño , Estudios de Cohortes , Proteínas del Citoesqueleto/metabolismo , Fiebre Mediterránea Familiar/epidemiología , Femenino , Frecuencia de los Genes , Grecia/epidemiología , Humanos , Masculino , Persona de Mediana Edad , Modelos Moleculares , Mutación , Filogenia , Pirina
7.
Trends Pharmacol Sci ; 11(12): 492-9, 1990 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-1964255

RESUMEN

Members of the G protein-linked receptor superfamily have not yet yielded to X-ray crystallography. However, diffraction data from other membrane-bound receptors - the photosynthetic reaction centre and bacteriorhodopsin - have provided some information that may also apply to the G protein family. John Findlay and Elias Eliopoulos integrate this information together with analysis of amino acid sequences from cloned receptors, to derive workable three-dimensional models of these proteins. Such models identify ligand-binding and G protein-associating domains.


Asunto(s)
Proteínas de Unión al GTP/metabolismo , Receptores de Superficie Celular/metabolismo , Animales , Humanos , Modelos Biológicos
8.
J Mol Biol ; 197(4): 695-706, 1987 Oct 20.
Artículo en Inglés | MEDLINE | ID: mdl-3430598

RESUMEN

The structure of the trigonal crystal form of bovine beta-lactoglobulin has been determined by X-ray diffraction methods. An electron density map, calculated with phases obtained by the multiple isomorphous replacement method, served as a starting point for alternate cycles of model building and restrained least-squares refinement. The model of the molecule fitted to the initial Fourier map was the one built for the orthorhombic crystal form of beta-lactoglobulin, solved at 2.8 A resolution (1 A = 0.1 nm). The final R factor for 1456 atoms (1276 non-hydrogen protein atoms and 180 solvent atoms) is 0.22, including 5245 reflections from 6.0 to 2.5 A. The molecule shows significant differences in the two crystal forms mentioned, mainly due to different packing. In the trigonal form, the species crystallized does not appear to be dimeric, but a linear polymer with tight intermolecular contacts. A difference electron density map between the complex of beta-lactoglobulin with retinol and the native protein shows no significant peaks in the cavity which, in the similar retinol-binding protein, binds the chromophore. Instead, differences are found at a surface pocket, which is limited almost completely by hydrophobic residues.


Asunto(s)
Lactoglobulinas , Vitamina A , Animales , Sitios de Unión , Bovinos , Cristalografía , Lactoglobulinas/metabolismo , Conformación Proteica , Vitamina A/metabolismo , Difracción de Rayos X
9.
Mol Immunol ; 37(14): 813-25, 2000 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-11257303

RESUMEN

Specific and major histocompatibility complex (MHC)-restricted T-cell recognition of antigenic peptides is based on interactions of the T-cell receptor (TCR) with the MHC alpha helices and solvent exposed peptide residues termed TCR contacts. In the case of MHC class II-presented peptides, the latter are located in the positions p2/3, p5 and p7/8 between MHC anchor residues. For numerous epitopes, peptide substitution studies have identified the central residue p5 as primary TCR contact characterized by very low permissiveness for peptide substitution, while the more peripheral positions generally represent auxiliary TCR contacts. In structural studies of TCR/peptide/MHC complexes, this has been shown to be due to intimate contact between the TCR complementarity determining region (CDR) three loops and the central peptide residue. We asked whether this model also applied to two HLA-DR presented epitopes derived from an antigen targeted in type 1 diabetes. Large panels of epitope variants with mainly conservative single substitutions were tested for human leukocyte antigen (HLA) class II binding affinity and T cell stimulation. Both epitopes bind with high affinity to the presenting HLA-DR molecules. However, in striking contrast to the standard distribution of TCR contacts, recognition of the central p5 residue displayed high permissiveness even for non-conservative substitutions, while the more peripheral p2 and p8 TCR contacts showed very low permissiveness for substitution. This suggests that intimate TCR interaction with the central peptide residue is not always required for specific antigen recognition and can be compensated by interactions with positions normally acting as auxiliary contacts.


Asunto(s)
Presentación de Antígeno , Autoantígenos/química , Diabetes Mellitus Tipo 1/inmunología , Antígenos HLA-DR/química , Fragmentos de Péptidos/inmunología , Receptores de Antígenos de Linfocitos T/química , Regiones Determinantes de Complementariedad , Epítopos , Antígenos HLA-DR/inmunología , Activación de Linfocitos , Modelos Estructurales , Receptores de Antígenos de Linfocitos T/inmunología , Linfocitos T/inmunología
10.
Gene ; 98(2): 153-9, 1991 Feb 15.
Artículo en Inglés | MEDLINE | ID: mdl-1849861

RESUMEN

A multiple alignment has been constructed, containing 37 sequences from related families of membrane-bound receptors believed to share the same structural framework as rhodopsin. Sequence homology within families was high (occasionally greater than 90%), but homology between them was generally low (20% or less). Database pattern-scanning methods were therefore used to construct a set of discriminators to aid both the task of alignment and the identification of distantly related sequences showing similar rhodopsin-like transmembrane helices. The results indicate that these discriminators are uniquely able to identify each of the transmembrane helices without major cross-reaction with similar regions in unrelated integral membrane proteins. This ability engenders more accurate alignments of the sequences and facilitates structural analysis and model building of the receptors.


Asunto(s)
Bases de Datos Factuales , Proteínas de Unión al GTP/genética , Receptores de Superficie Celular/genética , Homología de Secuencia de Ácido Nucleico , Secuencia de Aminoácidos , Animales , Humanos , Datos de Secuencia Molecular , Conformación Proteica , Rodopsina/genética
11.
FEBS Lett ; 218(1): 178-84, 1987 Jun 22.
Artículo en Inglés | MEDLINE | ID: mdl-3595861

RESUMEN

The structure of mouse L1210 dihydrofolate reductase (DHFR) complexed with NADPH and trimethoprim has been refined at 2.0 A resolution. The analogous complex with NADPH and methotrexate has been refined at 2.5 A resolution. These structures reveal for the first time details of drug interactions with a mammalian DHFR, which are compared with those observed from previous X-ray investigations of DHFR/inhibitor complexes. The refined L1210 structure has been used as the basis for the construction of a model of the human enzyme. There are only twenty-one sequence differences between mouse L1210 and human DHFRs, and all but two of these are located close to the molecular surface: a strong indication that the active sites are essentially identical in these two mammalian enzymes.


Asunto(s)
Leucemia L1210/enzimología , NADP/metabolismo , Proteínas de Neoplasias/metabolismo , Tetrahidrofolato Deshidrogenasa/metabolismo , Trimetoprim/metabolismo , Animales , Sitios de Unión , Humanos , Ratones , Modelos Moleculares , Unión Proteica , Conformación Proteica , Especificidad de la Especie , Difracción de Rayos X
12.
J Neuroimmunol ; 94(1-2): 182-95, 1999 Feb 01.
Artículo en Inglés | MEDLINE | ID: mdl-10376952

RESUMEN

The single chain Fv fragment of mAb198 (scFv198) directed against the main immunogenic region (MIR) of the nicotinic acetylcholine receptor (AChR), can efficiently protect the AChR in muscle cell cultures against the destructive activity of human myasthenic autoantibodies. Humanization of the scFv198 antibody fragment should prove useful for therapeutic application by reducing its immunogenicity. Framework sequences from human immunoglobulins homologous to the rat scFv198 sequences were selected and a totally synthetic humanized scFv198 antibody fragment was constructed in vitro. Humanized VH and VL domains were synthesized using two overlapping sets of 225 bases long oligonucleotides overlap extension and polymerase chain reaction (PCR), then assembled into a full-length gene by overlap extension of single-stranded DNA (ssDNA) fragments and PCR. The initial humanized antibody fragment had a very low affinity for the AChR. Molecular modeling was then performed and four residues from the framework regions (FR) of the humanized VH domain were selected to be replaced by the corresponding amino acid from the rat sequence. Three mutants were constructed by overlap extension, using PCR. The humanized variant containing replacements at VH residues 27, 29, 30 and 71 showed very good recovery of AChR binding activity; its binding affinities for Torpedo or human AChR (K(D): 8.5 or 323 nM, respectively) being only four times lower than those of the parental scFv198 (K(D): 2 or 80 nM, respectively). This variant was able to protect the human AChR against the binding of anti-MIR mAb and anti-alpha autoantibodies from a myasthenic patient. It was also able to protect AChR against antigenic modulation induced by the anti-MIR mAb198.


Asunto(s)
Fragmentos de Inmunoglobulinas/inmunología , Miastenia Gravis/inmunología , Receptores Colinérgicos/inmunología , Animales , Anticuerpos Monoclonales , Secuencia de Bases , Unión Competitiva/inmunología , Cartilla de ADN , Epítopos , Expresión Génica/inmunología , Humanos , Hibridomas , Fragmentos de Inmunoglobulinas/química , Fragmentos de Inmunoglobulinas/genética , Cadenas Pesadas de Inmunoglobulina/química , Cadenas Pesadas de Inmunoglobulina/genética , Cadenas Pesadas de Inmunoglobulina/inmunología , Cadenas Ligeras de Inmunoglobulina/química , Cadenas Ligeras de Inmunoglobulina/genética , Cadenas Ligeras de Inmunoglobulina/inmunología , Región Variable de Inmunoglobulina/química , Región Variable de Inmunoglobulina/genética , Región Variable de Inmunoglobulina/inmunología , Modelos Moleculares , Datos de Secuencia Molecular , Músculo Esquelético/química , Músculo Esquelético/inmunología , Mutagénesis/inmunología , Reacción en Cadena de la Polimerasa , Estructura Secundaria de Proteína , Ratas , Ratas Endogámicas Lew , Homología de Secuencia de Aminoácido , Torpedo
13.
Int J Biol Macromol ; 22(1): 51-7, 1998 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-9513816

RESUMEN

In the process of homology modelling of the 3-dimensional structure of alleles of the human histocompatibility protein HLA-DQ, we discovered that its RGD tripeptide (beta 167-169) forms part of a loop. A search through protein sequence data bases, revealed this cell adhesion motif in 67 integral plasma membrane proteins (in 48 extracellularly, and in the remaining 19 intracellularly), which are bona fide receptors, and none of them has thus far been considered as a cell adhesion protein. The 3-dimensional structure of one of these, the rat neonatal Fc receptor, is known and its extracellular RGD sequence is in an adhesion-like loop, a fact that went unnoticed in the original papers. In a few other cases, e.g. rat and mouse growth hormone receptor, and mouse CD40 ligand, homology modelling by ourselves and others reveals that the said sequences are part of a loop, in similarity to all RGD sequences found in proteins with established adhesion function and known 3-dimensional structure. Likewise, inspection of all known protein 3-dimensional structures containing an RGD sequence, and not having a documented cell adhesion function (total of 65 separate entries) shows that such sequence is mostly (52/65 or 80% of cases) part of a loop. We therefore call attention to these surprising findings, discuss the possible cell adhesion role of these receptor proteins, and draw an analogy from the two well characterised examples, that of soluble IGF binding protein 1 and the transcriptional activator protein Tat of HIV, where their RGD sequences have been shown by site-directed mutagenesis to participate in cell-adhesion interactions, without prior knowledge of the location of the tripeptide, or the 3-dimensional structure of the respective protein.


Asunto(s)
Moléculas de Adhesión Celular/química , Moléculas de Adhesión Celular/fisiología , Oligopéptidos/química , Oligopéptidos/fisiología , Receptores de Superficie Celular/química , Receptores de Superficie Celular/fisiología , Homología de Secuencia de Aminoácido , Animales , Bovinos , Pollos , Cricetinae , Bases de Datos Factuales , Humanos , Ratones , Ratas , Porcinos
15.
J Comput Aided Mol Des ; 21(5): 239-49, 2007 May.
Artículo en Inglés | MEDLINE | ID: mdl-17295120

RESUMEN

The pharmacophoric concept plays an important role in ligand-based drug design methods to describe the similarity and diversity of molecules, and could also be exploited as a molecular representation scheme. A three-point pharmacophore method was used as a molecular representation perception. This procedure was implemented for dopamine antagonists of the D(2) receptor subtype. The molecular structures of the antagonists included in this analysis were categorized into two structurally distinct classes. Using structural superposition with internal energy minimization, two pharmacophore models were deduced. Based on these two models other D(2) antagonists that fulfil them were derived and studied. This procedure aided the identification of the common 3D patterns present in diverse molecules that act at the same biological target and the extraction of a common molecular framework for the two structural classes. The pharmacophoric information was found to be suitable for guiding superposition of structurally diverse molecules, using a more biologically meaningful selection of the targeting points.


Asunto(s)
Biología Computacional , Antagonistas de Dopamina/química , Antagonistas de Dopamina/farmacología , Diseño de Fármacos , Programas Informáticos , Sitios de Unión , Conformación Molecular , Receptores de Dopamina D2/metabolismo
16.
Biochem Biophys Res Commun ; 345(4): 1326-32, 2006 Jul 14.
Artículo en Inglés | MEDLINE | ID: mdl-16730661

RESUMEN

Familial Mediterranean fever (FMF) is an autosomal, recessively inherited disease, characterized by recurrent fever and serositis that affects mainly patients of the Mediterranean basin. The gene responsible for FMF, named MEFV, was cloned and several missense mutations were found to be responsible for the disease. Based on a recent molecular analysis of MEFV gene mutations in 43 patients from Crete aiming to correlate specific genotypes and clinical manifestations of FMF, we were prompted to construct a three-dimensional model (3-D model) of the PRYSPRY domain of pyrin. The majority of the known MEFV mutations located on this domain have been classified, according to disease severity, and localized on this 3-D model. The functional consequences of these mutations and their implications on disease severity are discussed. Moreover, we report a putative novel missense mutation, S702C, which we identified in exon 10 of the MEFV gene and localized on the constructed 3-D model.


Asunto(s)
Proteínas del Citoesqueleto/genética , Fiebre Mediterránea Familiar/genética , Mutación Missense , Secuencias de Aminoácidos/genética , Secuencia de Aminoácidos , Proteínas del Citoesqueleto/química , Humanos , Modelos Moleculares , Estructura Terciaria de Proteína/genética , Pirina
17.
Biochem J ; 274 ( Pt 1): 79-83, 1991 Feb 15.
Artículo en Inglés | MEDLINE | ID: mdl-2001254

RESUMEN

Crustacyanin, cross-linked with dimethyl pimelimidate to stabilize the protein against denaturation, was used to test the effects of tryptophan modification with BNPS-skatole [3-bromo-3-methyl-2-(nitrophenylmercaptol)-3H-indole] on the ability of the apoprotein to recombine with astaxanthin. The cross-linked apoprotein re-forms alpha-crustacyanin with astaxanthin in reasonable yield following incubation of the protein under the conditions for tryptophan modification in the absence of BNPS-skatole. The BNPS-skatole-treated protein reconstitutes with astaxanthin to give a carotenoprotein with lambda max. at 472 nm, that of the carotenoid in hexane, in a yield similar to that of the BNPS-skatole-untreated control. The implied involvement of tryptophan residues at the sites of astaxanthin attachment in crustacyanin and their possible roles in the binding sites of vitamin A in vitamin A-proteins are discussed in relation to the bathochromic spectral shifts of the chromophores.


Asunto(s)
Carotenoides/metabolismo , Proteínas/metabolismo , Triptófano , beta Caroteno/análogos & derivados , Animales , Apoproteínas/metabolismo , Sitios de Unión , Proteínas Portadoras , Electroforesis en Gel de Poliacrilamida , Modelos Moleculares , Nephropidae , Conformación Proteica , Proteínas/aislamiento & purificación , Escatol/análogos & derivados , Escatol/farmacología , Espectrofotometría , Xantófilas
18.
Biochem J ; 315 ( Pt 2): 687-93, 1996 Apr 15.
Artículo en Inglés | MEDLINE | ID: mdl-8615848

RESUMEN

The ability of the reactive dichlorotriazine dye Vilmafix Blue A-R (VBAR) to act as an affinity label for bovine heart L-malate dehydrogenase (MDH) was studied. VBAR binds specifically and irreversibly to MDH (k3 0.16 min-1; KD 14.4 microM). The inactivation of the NADH-dependent enzyme by VBAR is competitively inhibited by NAD+, NADH and ADP. Quantitatively inhibited MDH contained approx. 1 mol of dye per mol of active site. The inhibition is irreversible and activity cannot be recovered either on incubation with 10 mM NAD+, 10 mM NADH or 10 mM ADP, or by extensive dialysis or gel-filtration chromatography. Data obtained from high-performance gel-filtration chromatography and analysed by Scatchard plot suggested the presence of two coenzyme-binding sites per MDH dimer. Tryptic digestion of VBAR-labelled MDH followed by reverse-phase HPLC analysis revealed one VBAR-labelled peptide. It appears that each subunit features the same peptide bearing the modifying residue involved in MDH labelling. The pKa of the modifying residue is 8.05. Both total acid hydrolysis of VBAR-labelled MDH followed by HPLC and TLC analysis, and molecular-modelling studies suggest that the modifying residue is Lys-81 and/or Lys-217.


Asunto(s)
Malato Deshidrogenasa/química , Malato Deshidrogenasa/metabolismo , Mitocondrias Cardíacas/enzimología , Marcadores de Afinidad/química , Animales , Antraquinonas/química , Sitios de Unión , Bovinos , Colorantes/química , Técnicas In Vitro , Cinética , Lisina/química , Malato Deshidrogenasa/antagonistas & inhibidores , Modelos Moleculares , Estructura Molecular , NAD/metabolismo , Conformación Proteica , Triazinas/química
19.
Biochem J ; 315 ( Pt 2): 695-703, 1996 Apr 15.
Artículo en Inglés | MEDLINE | ID: mdl-8615849

RESUMEN

Molecular modelling and kinetic inhibition studies, as well as KD determinations by both difference-spectra and enzyme-inactivation studies, were employed to assess the ability of purpose-designed chimaeric biomimetic dyes (BM dyes) to act as affinity ligands for bovine heart L-malate dehydrogenase (MDH). Each BM dye was composed of two enzyme-recognition moieties. The terminal biomimetic moiety bore a carboxyl or a keto acid structure linked to the triazine ring, thus mimicking the substrate of MDH. The chromophore anthraquinone moiety remained unchanged and the same as that of the parent dye Vilmafix Blue A-R (VBAR), recognizing the nucleotide-binding site of MDH. The monochlorotriazine BM dyes did not inactivate MDH but competitively inhibited inactivation by the parent dichlorotriazine dye VBAR. Dye binding to MDH was accompanied by a characteristic spectral change in the range 500-850 nm. This phenomenon was reversed after titration with increasing amounts of NADH. When compared with VBAR, Cibacron Blue 3GA and two control non-biomimetic anthraquinone dyes, all BM dyes exhibited lower KD values and therefore higher affinity for MDH. The enzyme bound preferably to BM ligands substituted with a biomimetic aromatic moiety bearing an alpha-keto acid group and an amide linkage, rather than a monocarboxyl group. Thus the biomimetic dye bearing p-aminobenzyloxanilic acid as its terminal biomimetic moiety (BM5) exhibited the highest affinity (KD 1.3 microM, which corresponded to a 219-fold decrease over the KD of a control dye). BM5 displayed competitive inhibition with respect to both NADH (Ki 2.7 microM) and oxaloacetate (Ki 9.6 microM). A combination of molecular modelling and experimental studies has led to certain conclusions. The positioning of the dye in the enzyme is primarily achieved by the recognition and positioning of the nucleotide-pseudomimetic anthraquinone moiety. The hydrophobic groups of the dye provide the driving force for positioning of the ketocarboxyl biomimetic moiety. A match between the alternating polar and hydrophobic regions of the enzyme binding site with those of the biomimetic moiety is desirable. The length of the biomimetic moiety should be conserved in order for the keto acid to approach the enzyme active site and form charge-charge interactions.


Asunto(s)
Colorantes/química , Malato Deshidrogenasa/química , Malato Deshidrogenasa/metabolismo , Mitocondrias Cardíacas/enzimología , Modelos Moleculares , Marcadores de Afinidad/química , Animales , Antraquinonas/química , Sitios de Unión , Bovinos , Diseño de Fármacos , Inhibidores Enzimáticos/química , Técnicas In Vitro , Ligandos , Malato Deshidrogenasa/antagonistas & inhibidores , Triazinas/química
20.
Biotechnol Bioeng ; 63(3): 322-32, 1999 May 05.
Artículo en Inglés | MEDLINE | ID: mdl-10099612

RESUMEN

Molecular modeling was employed for the design of a biomimetic chimeric ligand for L-lactate dehydrogenase (LDH). This ligand is an anthraquinone monochlorotriazinyl dye comprising two moieties: (a) the ketocarboxyl biomimetic moiety, 2-(4-aminophenyl)-ethyloxamic acid, linked on the monochlorotriazine ring, mimicking the natural substrate of LDH, and (b) the anthraquinone chromophore moiety, linked also on the same monochlorotriazine ring via a diaminobenzenesulfonate group, acting as pseudomimetic of the cofactor NAD+. The positioning of the dye in the enzyme's binding site is primarily achieved by the recognition and positioning of the pseudomimetic anthraquinone moiety. The positioning of the biomimetic ketocarboxylic moiety is based on a match between the polar and hydrophobic regions of the enzyme's binding site with those of the biomimetic moiety of the ligand. The length of the biomimetic moiety is predetermined for the ketoacid to approach the enzyme catalytic site and form charge-charge interactions. The biomimetic chimeric ligand and the commercial nonbiomimetic ligand Cibacron(R) blue 3GA (CB3GA), were immobilized on crosslinked beaded agarose gel via their chlorotriazine ring. The two affinity adsorbents were evaluated for their purifying ability for LDH from six sources (bovine heart and pancreas, porcine muscle, chicken liver and muscle, and pea seeds). The biomimetic adsorbent exhibited approximately twofold higher purifying ability for LDH compared to the CB3GA adsorbent; therefore, the former was integrated in the purification procedure of LDH from bovine heart extract. The LDH afforded by this two-step purification procedure shows specific activity equal to 600 U/mg (25 degrees C) and a single band after SDS-PAGE analysis.


Asunto(s)
Colorantes , L-Lactato Deshidrogenasa/química , L-Lactato Deshidrogenasa/aislamiento & purificación , Ligandos , Animales , Sitios de Unión , Bovinos , Cromatografía de Afinidad/métodos , Diseño de Fármacos , Enlace de Hidrógeno , Modelos Moleculares , Conformación Molecular , Miocardio/enzimología , Conformación Proteica , Sefarosa , Porcinos
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