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1.
Exp Biol Med (Maywood) ; 231(8): 1373-8, 2006 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-16946406

RESUMO

The enzyme dipeptidyl peptidase-IV (DPP-IV) inactivates a variety of bioactive peptides, including glucagon-like peptide-1 (GLP-1) and growth hormone releasing hormone (GHRH). Inhibiting DPP-IV in order to increase circulating GLP-1 is of interest as a treatment for Type II diabetes. Inactivation of DPP-IV may also increase circulating GHRH, potentially enhancing growth in domestic animals. To test the hypothesis that inhibition of DPP-IV activity will influence the growth hormone/ IGF-1 axis, growing pigs (Sus scrofa domesticus, 78 kg) were treated with a DPP-IV inhibitor (Compound 1, the 2,5-difluor-ophenyl analog of the triazolopiperazine MK0431, sitagliptin), and plasma concentrations of IGF-1 were monitored. Pigs were administered either sterile saline (0.11 ml/kg followed by a continuous infusion at 2 ml/hr for 72 hrs, controls, n = 2), Compound 1 (2.78 mg/kg followed by a continuous infusion at 0.327 mg/kg x hr for 72 hrs, n = 4) or GHRH (0.11 ml/kg sterile saline, followed by a continuous infusion of GHRH at 2.5 microg/ kg x hr for 48 hrs, n = 4). Plasma concentrations of Compound 1 were maintained at 1 microM, which resulted in a 90% inhibition of circulating DPP-IV activity. Relative to the predose 24-hr period, area under the IGF-1 concentration curve (AUC) tended to be lower (P = 0.062) with Compound 1 (.79 +/- 130 ng/ml x hr) than controls (543 +/- 330 ng/ml x hr). GHRH treatment increased the IGF-1 AUC (1210 +/- 160 ng/ml x hr, P = 0.049 vs. controls and P = 0.001 vs. Compound 1). We conclude that inhibition of DPP-IV does not alter the circulating levels of IGF-1 in the growing pig.


Assuntos
Catepsina C/antagonistas & inibidores , Hormônio Liberador de Hormônio do Crescimento/metabolismo , Fator de Crescimento Insulin-Like I/metabolismo , Animais , Área Sob a Curva , Catepsina C/sangue , Catepsina C/efeitos dos fármacos , Inibidores Enzimáticos/farmacologia , Hormônio Liberador de Hormônio do Crescimento/efeitos dos fármacos , Fator de Crescimento Insulin-Like I/efeitos dos fármacos , Masculino , Pirazinas/farmacologia , Fosfato de Sitagliptina , Suínos , Triazóis/farmacologia
2.
J Mol Biol ; 304(3): 435-45, 2000 Dec 01.
Artigo em Inglês | MEDLINE | ID: mdl-11090285

RESUMO

MurF is required to catalyze the final step in the synthesis of the cytoplasmic precursor of the bacterial cell wall peptidoglycan, rendering it an attractive target for antibacterial drug development. The crystal structure of the MurF apo-enzyme has been determined using the multiwavelength anomalous dispersion method and refined to 2.3 A resolution. It contains three consecutive open alpha/beta-sheet domains. In comparison with the complex crystal structures of MurD and its substrates, The topology of the N-terminal domain of MurF is unique, while its central and C-terminal domains exhibit similar mononucleotide and dinucleotide-binding folds, respectively. The apo-enzyme of MurF crystal structure reveals an open conformation with the three domains juxtaposed in a crescent-like arrangement creating a wide-open space where substrates are expected to bind. As such, catalysis is not feasible and significant domain closure is expected upon substrate binding.


Assuntos
Escherichia coli/enzimologia , Peptídeo Sintases/química , Trifosfato de Adenosina/metabolismo , Sequência de Aminoácidos , Apoenzimas/química , Apoenzimas/metabolismo , Sítios de Ligação , Cristalografia por Raios X , Difusão , Ligantes , Modelos Moleculares , Dados de Sequência Molecular , Peptídeo Sintases/metabolismo , Estrutura Secundária de Proteína , Estrutura Terciária de Proteína , Alinhamento de Sequência
3.
Biochim Biophys Acta ; 1480(1-2): 132-44, 2000 Jul 14.
Artigo em Inglês | MEDLINE | ID: mdl-10899615

RESUMO

Protein geranylgeranyltransferase type I (GGTase I) is a heterodimeric zinc metalloenzyme catalyzing protein geranylgeranylation at cysteine residues present in C-terminal signature sequences referred to as CaaX (X=Leu) motifs. We have studied GGTase I as a potential antifungal target and recently reported its purification and cloning from the yeast Candida albicans (Ca GGTase I), an important human pathogen. Here, we report the high yield bacterial expression of Ca GGTase I by coexpression of maltose binding protein fusion proteins of both the alpha (Ram2p) and beta (Cdc43p) subunits. The cleaved and purified recombinant Ca GGTase I was demonstrated to be functional and structurally intact as judged by the presence of one equivalent of a tightly bound zinc atom and the near stoichiometric formation, isolation and catalytic turnover of a geranylgeranyl pyrophosphate-GGTase I complex. Kinetic analysis was performed with a native substrate protein, Candida Cdc42p, which exhibited significant pH dependent substrate inhibition, a feature not observed with other Ca GGTase I substrates. Prenyl acceptor substrate specificity was studied with a series of peptides in which both the CaaX motif, and the sequence preceding it, were varied. The prenyl acceptor K(M)s were found to vary nearly 100-fold, with biotinyl-TRERKKKKKCVIL, modeled after a presumably geranylgeranylated Candida protein, Crl1p (Rho4p), being the optimal substrate. A screen for inhibitors of Ca GGTase I identified compounds showing selectivity for the Candida versus human GGTase I. The most potent and selective compound, L-689230, had an IC(50) of 20 nM and >12,500-fold selectivity for Ca GGTase I. The lack of significant anti-Candida activity for any of these inhibitors is consistent with the recent finding that GGTase I is not required for C. albicans viability [R. Kelly et al., J. Bacteriol. 182 (2000) 704-713].


Assuntos
Alquil e Aril Transferases/metabolismo , Candida albicans/enzimologia , Inibidores Enzimáticos/farmacologia , Alquil e Aril Transferases/antagonistas & inibidores , Sequência de Aminoácidos , Sequência de Bases , Dados de Sequência Molecular , Proteínas Recombinantes/antagonistas & inibidores , Proteínas Recombinantes/metabolismo , Especificidade por Substrato
4.
FEMS Microbiol Lett ; 179(2): 289-96, 1999 Oct 15.
Artigo em Inglês | MEDLINE | ID: mdl-10518728

RESUMO

IMP-1 metallo-beta-lactamase is a transferable carbapenem-hydrolyzing enzyme found in some clinical isolates of Pseudomonas aeruginosa, Serratia marcescens and Klebsiella pneumoniae. Bacteria that express IMP-1 show significantly reduced sensitivity to carbapenems and other beta-lactam antibiotics. A series of thioester derivatives has been shown to competitively inhibit purified IMP-1. As substrates for IMP-1, the thioesters yielded thiol hydrolysis products which themselves were reversible competitive inhibitors. The thioesters also increased sensitivity to the carbapenem L-742,728 in an IMP-1-producing laboratory stain of Escherichia coli, but will need further modification to improve their activity in less permeable organisms such as Pseudomonas and Serratia. Nonetheless, the thioester IMP-1 inhibitors offer an encouraging start to overcoming metallo-beta-lactamase-mediated resistance in bacteria.


Assuntos
Bactérias/efeitos dos fármacos , Carbapenêmicos/metabolismo , Inibidores Enzimáticos/farmacologia , Compostos de Sulfidrila/farmacologia , Inibidores de beta-Lactamases , Bactérias/enzimologia
5.
J Biomol NMR ; 13(4): 311-24, 1999 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-10353194

RESUMO

The NMR structure of the peptide deformylase (PDF) (1-150) from Escherichia coli, which is an essential enzyme that removes the formyl group from nascent polypeptides and represents a potential target for drug discovery, was determined using 15N/13C doubly labeled protein. Nearly completely automated assignment routines were employed to assign three-dimensional triple resonance, 15N-resolved and 13C-resolved NOESY spectra using the program GARANT. This assignment strategy, demonstrated on a 17 kDa protein, is a significant advance in the automation of NMR data assignment and structure determination that will accelerate future work. A total of 2302 conformational constraints were collected as input for the distance geometry program DYANA. After restrained energy minimization with the program X-PLOR the 20 best conformers characterize a high quality structure with an average of 0.43 A for the root-mean-square deviation calculated from the backbone atoms N, C alpha and C', and 0.81 A for all heavy atoms of the individual conformers relative to the mean coordinates for residues 1 to 150. The globular fold of PDF contains two alpha-helices comprising residues 25-40, 125-138, six beta-strands 57-60, 70-77, 85-88, 98-101, 105-111, 117-123 and one 3(10) helix comprising residues 49-51. The C-terminal helix contains the HEXXH motif positioning a zinc ligand in a similar fashion to other metalloproteases, with the third ligand being cysteine and the fourth presumably a water. The three-dimensional structure of PDF affords insight into the substrate recognition and specificity for N-formylated over N-acetylated substrates and is compared to other PDF structures.


Assuntos
Amidoidrolases , Aminopeptidases/química , Escherichia coli/enzimologia , Sequência de Aminoácidos , Aminopeptidases/genética , Automação , Isótopos de Carbono , Sequência Conservada , Escherichia coli/genética , Modelos Moleculares , Dados de Sequência Molecular , Isótopos de Nitrogênio , Ressonância Magnética Nuclear Biomolecular , Estrutura Secundária de Proteína , Proteínas Recombinantes/química , Software , Soluções , Termodinâmica
6.
Acta Crystallogr D Biol Crystallogr ; 55(Pt 12): 2033-4, 1999 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-10666581

RESUMO

Crystals of the Escherichia coli UDP-MurNAc-tripeptide D-Ala-D-Ala-adding protein (MurF), which catalyzes the formation of the last metabolite of the bacterial cell-wall building block, have been grown in hanging-drop vapor-diffusion trials using PEG 8K as a precipitating agent. The crystals belong to hexagonal space group P6(1) or P6(5), with unit-cell dimensions a = b = 74, c = 425 A. The asymmetric unit contains two molecules, with a crystal volume per protein mass (V(m)) of 3.4 A(3) Da(-1) and a solvent content of about 64% by volume. A native data set to 2.8 A resolution has been obtained from a frozen crystal using a synchrotron X-ray source.


Assuntos
Escherichia coli/enzimologia , Peptídeo Sintases/química , Peptídeo Sintases/isolamento & purificação , Sequência de Bases , Cristalização , Cristalografia por Raios X , Primers do DNA/genética , Escherichia coli/genética , Expressão Gênica , Peptídeo Sintases/genética , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/isolamento & purificação
7.
J Biol Chem ; 273(49): 32608-13, 1998 Dec 04.
Artigo em Inglês | MEDLINE | ID: mdl-9829999

RESUMO

Studies with peptide-based and macromolecular inhibitors of the caspase family of cysteine proteases have helped to define a central role for these enzymes in inflammation and mammalian apoptosis. A clear interpretation of these studies has been compromised by an incomplete understanding of the selectivity of these molecules. Here we describe the selectivity of several peptide-based inhibitors and the coxpox serpin CrmA against 10 human caspases. The peptide aldehydes that were examined (Ac-WEHD-CHO, Ac-DEVD-CHO, Ac-YVAD-CHO, t-butoxycarbonyl-IETD-CHO, and t-butoxycarbonyl-AEVD-CHO) included several that contain the optimal tetrapeptide recognition motif for various caspases. These aldehydes display a wide range of selectivities and potencies against these enzymes, with dissociation constants ranging from 75 pM to >10 microM. The halomethyl ketone benzyloxycarbonyl-VAD fluoromethyl ketone is a broad specificity irreversible caspase inhibitor, with second-order inactivation rates that range from 2.9 x 10(2) M-1 s-1 for caspase-2 to 2.8 x 10(5) M-1 s-1 for caspase-1. The results obtained with peptide-based inhibitors are in accord with those predicted from the substrate specificity studies described earlier. The cowpox serpin CrmA is a potent (Ki < 20 nM) and selective inhibitor of Group I caspases (caspase-1, -4, and -5) and most Group III caspases (caspase-8, -9, and -10), suggesting that this virus facilitates infection through inhibition of both apoptosis and the host inflammatory response.


Assuntos
Aldeídos/farmacologia , Caspases/metabolismo , Inibidores de Cisteína Proteinase/farmacologia , Peptídeos/farmacologia , Proteínas Virais , Clorometilcetonas de Aminoácidos/farmacologia , Humanos , Proteínas Recombinantes/farmacologia , Serpinas/farmacologia , Especificidade por Substrato
8.
Anal Biochem ; 256(2): 185-91, 1998 Feb 15.
Artigo em Inglês | MEDLINE | ID: mdl-9473276

RESUMO

UDP-GlcN[1-14C]Ac was synthesized in a single enzymatic reaction from [1-14C]acetate and commercially available precursors on both a microcurie (micromole) and a millicurie (millimole) scale. The reaction was catalyzed by the action of acetyl coenzyme A synthetase, inorganic pyrophosphatase, and the bifunctional Escherichia coli GlmU protein. Within 2 h 86 to 94% reaction is attained, and it approaches 99% completion overnight. GlmU protein was prepared in the form of a fusion suitable for nickel chelate affinity chromatography. Several methods were developed for rapid purification of UDP-GlcN[1-14C]Ac: an HPLC method handled micromole (microcurie) loads. Alternatively, ion exchange chromatography over DOWEX AG1 X-2 using a batch elution procedure was compatible with millimole (millicurie) amounts of radiolabel and yielded both chemically and radiochemically homogeneous UDP-GlcN[1-14C]Ac. These methods allow laboratories to quickly produce and purify microcurie to millicurie quantities of N-acetyl-labeled UDP-GlcNAc by a choice of methods from relatively inexpensive precursors.


Assuntos
Transportadores de Cassetes de Ligação de ATP , Proteínas de Escherichia coli , Proteínas de Transporte de Monossacarídeos , Nucleotidiltransferases/metabolismo , Uridina Difosfato N-Acetilglicosamina/biossíntese , Uridina Difosfato N-Acetilglicosamina/isolamento & purificação , Amidoidrolases/metabolismo , Sequência de Aminoácidos , Sequência de Bases , Radioisótopos de Carbono , Proteínas de Transporte/genética , Cromatografia Líquida de Alta Pressão , Cromatografia em Camada Fina , Clonagem Molecular , Escherichia coli/genética , Proteínas Ligantes de Maltose , Dados de Sequência Molecular , Proteínas Recombinantes de Fusão/biossíntese , Proteínas Recombinantes de Fusão/isolamento & purificação , Uridina Difosfato N-Acetilglicosamina/genética
9.
Anal Biochem ; 255(1): 113-9, 1998 Jan 01.
Artigo em Inglês | MEDLINE | ID: mdl-9448849

RESUMO

High level methicillin resistance in Staphylococcus aureus is dependent upon the acquisition of the mecA gene encoding penicillin-binding protein 2a (PBP2a). PBP2a is a member of a family of peptidoglycan biosynthetic enzymes involved in assembly of the cell wall in bacteria and is poorly inactivated by beta-lactam antibiotics. We describe a 96-well-filter binding assay using recombinant, soluble PBP2a which allows for kinetic measurement of penicillin binding. The deacylation rate constant for the PBP2a-penicillin G covalent complex was found to be 5.7 +/- 1.0 x 10(-5) s-1 at 30 degrees C (half-life of approximately 200 min). For the PBP2a acylation reaction, the value of K(m) (penicillin G) = 0.5 +/- 0.1 mM and kcat = 1 x 10(-3) s-1, which yields a second-order rate constant (kcat/K(m)) for inactivation of 2.0 M-1 s-1. Using this assay, several non-beta-lactam inhibitors including Cibacron blue have been found which exhibit IC50 values between 10 and 30 microM. The binding affinities of several carbapenems and beta-lactams correlated well between the filter binding assay described in this report and an electrophoretic assay for PBP2a using membranes prepared form methicillin-resistant S. aureus.


Assuntos
Proteínas de Bactérias , Proteínas de Transporte/metabolismo , Hexosiltransferases , Muramilpentapeptídeo Carboxipeptidase/metabolismo , Peptidil Transferases , Antibacterianos/química , Antibacterianos/metabolismo , Antibacterianos/farmacologia , Sítios de Ligação , Ligação Competitiva , Biotecnologia/instrumentação , Biotecnologia/métodos , Carbapenêmicos/química , Carbapenêmicos/metabolismo , Proteínas de Transporte/antagonistas & inibidores , Proteínas de Transporte/química , Precipitação Química , Dimetil Sulfóxido , Inibidores Enzimáticos/química , Inibidores Enzimáticos/metabolismo , Inibidores Enzimáticos/farmacologia , Imidazóis/química , Imidazóis/metabolismo , Imipenem/química , Imipenem/metabolismo , Cinética , Métodos , Filtros Microporos , Muramilpentapeptídeo Carboxipeptidase/antagonistas & inibidores , Muramilpentapeptídeo Carboxipeptidase/química , Penicilina G/química , Penicilina G/metabolismo , Proteínas de Ligação às Penicilinas , Proteínas Recombinantes/antagonistas & inibidores , Proteínas Recombinantes/química , Proteínas Recombinantes/metabolismo , Sensibilidade e Especificidade , Solubilidade , Triazinas/química , Triazinas/metabolismo , Triazinas/farmacologia , Trítio
10.
Anal Biochem ; 265(2): 351-5, 1998 Dec 15.
Artigo em Inglês | MEDLINE | ID: mdl-9882413

RESUMO

Random deuteration of recombinant proteins in Escherichia coli is widely used for protein structure determination by nuclear magnetic resonance (NMR). It is desirable to predict accurately the degree of deuteration because each NMR experiment benefits from a different level of deuteration. The method described here which uses [2H]2O and glucose as the sole carbon and deuterium sources is an alternative for a previously published procedure using acetate and [2H]2O (Venter et al., J. Biomol. NMR 5, 339-344, 1995) and it is of advantage for proteins that do not express well using acetate. While the deuteration degree with acetate is approximately linear with the [2H]2O content in the medium, the use of glucose leads to deviations up to 19%, which is analyzed systematically here. With [2H]2O as the sole deuterium source 0-86% of the chemically nonexchangeable hydrogen atoms can be deuterated. Higher levels of deuteration require perdeuterated glucose in combination with [2H]2O. As an example, recombinant peptide deformylase from Bacillus subtilis was overexpressed, deuterated to various degrees, purified, and analyzed by mass spectrometry and NMR.


Assuntos
Amidoidrolases , Aminopeptidases/química , Deutério/química , Escherichia coli/genética , Aminopeptidases/genética , Sequência de Bases , Primers do DNA , Espectroscopia de Ressonância Magnética , Espectrometria de Massas , Conformação Proteica , Proteínas Recombinantes/química , Proteínas Recombinantes/genética
11.
Protein Expr Purif ; 10(3): 309-19, 1997 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-9268677

RESUMO

Using the maltose-binding protein (MBP) fusion vector pMAL-c1 from C. V. Maina et al. (1988, Gene 74, 365-373), we have constructed expression vectors which contain a sequence encoding six consecutive histidine residues (His6-tag) at the 3' end of the MBP-encoding malE gene which is followed by either a thrombin-binding site (LVPRGS) or a factor Xa-binding site (IEGR). The benefits of this approach include; (a) high expression levels of soluble MBP fusion proteins (exceeding 2% of the total cellular protein), (b) high-quality purification of proteins under various conditions (high salt, low salt, denaturing, nondenaturing, etc.), and (c) two alternative protease cleavage sites to test for the most efficient cleavage of each fusion protein. We also constructed these MBP-His 6-tag expression vectors with alternative selection markers (Ampr, Kanr) and alternative promoters (tac, T7). Using these constructs, we expressed and purified several proteins of which we present two, penicillin-binding protein PBP2a and UDP-N-acetylmuramate:L-alanine ligase (MurC), and compare their expression level and purity with other expression systems. We also discuss the use of minimal media with supplements versus rich media and cell growth strategies to optimize the protein yield in general and for isotope labeling.


Assuntos
Transportadores de Cassetes de Ligação de ATP , Proteínas de Bactérias , Proteínas de Transporte/biossíntese , Proteínas de Transporte/genética , Proteínas de Escherichia coli , Escherichia coli/genética , Hexosiltransferases , Proteínas de Transporte de Monossacarídeos , Muramilpentapeptídeo Carboxipeptidase/biossíntese , Peptídeo Sintases/biossíntese , Peptidil Transferases , Proteínas Periplásmicas de Ligação , Proteínas Recombinantes de Fusão/biossíntese , Sequência de Aminoácidos , Sequência de Bases , Sítios de Ligação , Proteínas de Transporte/química , Proteínas de Transporte/isolamento & purificação , Cromatografia de Afinidade , Clonagem Molecular , Eletroforese em Gel de Poliacrilamida , Expressão Gênica , Vetores Genéticos , Histidina/química , Histidina/genética , Proteínas Ligantes de Maltose , Dados de Sequência Molecular , Muramilpentapeptídeo Carboxipeptidase/genética , Muramilpentapeptídeo Carboxipeptidase/isolamento & purificação , Proteínas de Ligação às Penicilinas , Peptídeo Sintases/genética , Peptídeo Sintases/isolamento & purificação , Proteínas Recombinantes de Fusão/química , Proteínas Recombinantes de Fusão/isolamento & purificação , Solubilidade
12.
J Mol Biol ; 267(3): 673-83, 1997 Apr 04.
Artigo em Inglês | MEDLINE | ID: mdl-9126845

RESUMO

The nuclear magnetic resonance (NMR) solution structure of the non-classical homeodomain from the rat liver LFB1/HNF1 transcription factor was determined with the program DIANA from an input of 1356 nuclear Overhauser enhancement (NOE) upper distance constraints and 228 dihedral angle constraints collected using experiments with the unlabelled, the uniformly 15N-labelled and the uniformly 13C-labelled protein. Out of a group of 50 independently calculated conformers the 20 conformers with the smallest residual DIANA target function values were refined by energy minimization with the program OPAL and are used to represent the NMR structure. The average of the pairwise root-mean-square deviations (r.m.s.d.) of these 20 individual NMR conformers relative to the mean coordinates is 0.73 A (1 A = 0.1 nm) for the backbone atoms N, C(alpha) and C' of residues 15 to 82. The chain-terminal polypeptide segments 1-14 and 90-99 are disordered in solution. The globular fold contains three well-defined helices comprising the residues 19 to 29, 37 to 53 and 71 to 81, and the third helix is extended by a less well-ordered fourth helix with residues 82 to 89, which coincides with corresponding observations in "classical" homeodomains. Side-chain analysis resulted in 33 "best-defined" side-chains, with global displacements smaller than 1.1 A, and addition of these side-chains to the global superposition of residues 15 to 82 resulted in a r.m.s.d of 0.81 A. The protein contains two hydrophobic cores, one of which corresponds to the helical packing seen in classical homeodomains, while the other one stabilizes the conformation of the 21-residue insertion between helices II and III. The individual helices and their relative spatial arrangements are stabilized by a variety of structural motifs, which include medium-range and long-range hydrogen bonds and salt bridges. Detailed comparison with the Antennapedia homeodomain, and studies of the complex formation with an operator DNA half-site provided initial information on the DNA-binding mode of the LFB1/HNF1 homeodomain.


Assuntos
Proteínas de Ligação a DNA , Proteínas de Homeodomínio/química , Fígado/química , Proteínas Nucleares , Fatores de Transcrição/química , Animais , Fator 1 Nuclear de Hepatócito , Fator 1-alfa Nuclear de Hepatócito , Fator 1-beta Nuclear de Hepatócito , Espectroscopia de Ressonância Magnética , Modelos Moleculares , Dados de Sequência Molecular , Conformação Proteica , Ratos , Alinhamento de Sequência
13.
Biochemistry ; 35(20): 6201-11, 1996 May 21.
Artigo em Inglês | MEDLINE | ID: mdl-8639560

RESUMO

Signal transduction in B cells is mediated, in part, by the interaction of the cytoplasmic components of the antigen receptor complex and various members of the src family tyrosine kinases. Key to this process appears to be the interaction of the tyrosine kinase SH2 domains with the tyrosine-phosphorylated cytoplasmic domain of Ig-alpha, a disulfide-bonded heterodimeric (with Ig-beta or Ig-gamma) transmembrane protein that noncovalently associates with the antigen receptor immunoglobin chains. In addition to binding to the phosphorylated cytoplasmic domains of Ig-alpha and Ig-beta, blk and fyn(T), two members of the src family kinases, have been shown to bind overlapping but distinct sets of phosphoproteins [Malek & Desiderio (1993) J. Biol. Chem. 268. 22557-22565]. A comparison of their three-dimensional structures may elucidate the apparently subtle differences required for phosphoprotein discrimination. To begin characterizing the blk/fyn/phosphosphoprotein interactions, we have determined the three-dimensional solution structure of the SH2 domain of blk kinase by nuclear magnetic resonance (NMR) spectroscopy. 1H, 13C, and 15N resonances of the SH2 domain of blk kinase were assigned by analysis of multidimensional, double- and triple-resonance NMR experiments. Twenty structures of the blk SH2 domain were refined with the program X-PLOR using a total of 2080 experimentally derived conformational restraints. The structures converged to a root-mean-squared (rms) distance deviation of 0.51 and 0.95 A for the backbone atoms and for the non-hydrogen atoms, respectively. The blk SH2 domain adopts the prototypical SH2 fold. Structurally, blk SH2 is most similar to the crystal structure of the v-src SH2 domain [Waksman et al. (1993) Nature 358.646-653] and superimposes on the crystal structure with an rmsd of 1.52 A for the backbone atoms. The largest deviations occur in the four loops interconnecting beta-strands A-E, which are the least well-defined regions in the NMR structure. Exclusion of these loops lowers this rmsd to 0.82 A. The conformation of the BC loop in the blk SH2 domain is similar to the open conformation in the apo lck SH2 domain, suggesting that, like the lck SH2 domain, the blk SH2 domain may have a gated phosphopeptide binding site. Finally, it is proposed that the amino acid substitution of Lys 88 (blk) for Glu [fyn(T)] is important for the observed differences in specificity between blk and fyn(T) SH2 domains.


Assuntos
Quinases da Família src/química , Sequência de Aminoácidos , Animais , Linfócitos B/enzimologia , Espectroscopia de Ressonância Magnética , Modelos Moleculares , Dados de Sequência Molecular , Estrutura Molecular , Conformação Proteica , Proteínas Proto-Oncogênicas/química , Proteínas Proto-Oncogênicas/genética , Proteínas Proto-Oncogênicas c-fyn , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Homologia de Sequência de Aminoácidos , Transdução de Sinais , Soluções , Domínios de Homologia de src , Quinases da Família src/genética , Quinases da Família src/metabolismo
14.
EMBO J ; 12(5): 1797-803, 1993 May.
Artigo em Inglês | MEDLINE | ID: mdl-8491172

RESUMO

The three-dimensional backbone fold of a polypeptide fragment from the rat LFB1/HNF1 transcription factor was determined by nuclear magnetic resonance (NMR) spectroscopy in solution. This fragment contains an amino acid sequence that is approximately 22% homologous to the well known homeodomains, but which contains 81 amino acid residues as compared with 60 residues in 'typical' homeodomains. For the present studies we used a recombinant 99 amino acid polypeptide containing this sequence in positions 10-90, which was uniformly labelled with 15N and also doubly labelled with 15N and 13C. The NMR structure of this polypeptide contains three alpha-helices comprising the residues 18-29, 36-50 and 71-84, a loop formed by residues 30-35, and a long stretch of non-regular secondary structure linking the second and third helices. The relative location and orientation of the helices is very similar to that in the Antennapedia (Antp) homeodomain structure, despite the fact that helix II is elongated by about one turn. This confirms a recently advanced hypothesis based on sequence comparisons that this polypeptide segment of LFB1/HNF1 might represent a homeodomain-like structural element. The helix-turn-helix motif, which has been shown to comprise the DNA recognition helix in the Antp homeodomain, can readily be recognized in the LFB1/HNF1 homeodomain, in spite of an extensive modification of the primary structure. The two residues of the tight turn in the Antp homeodomain are replaced by a 23 residue linker region between the two helices in LFB1/HNF1, which bulges out from the rest of the molecule and thus enables the formation of a non-classical helix--turn--helix motif.


Assuntos
Proteínas de Ligação a DNA/química , Proteínas de Homeodomínio , Fígado/química , Proteínas Nucleares , Fragmentos de Peptídeos/química , Fatores de Transcrição/química , Sequência de Aminoácidos , Animais , Proteína do Homeodomínio de Antennapedia , Fator 1 Nuclear de Hepatócito , Fator 1-alfa Nuclear de Hepatócito , Fator 1-beta Nuclear de Hepatócito , Espectroscopia de Ressonância Magnética , Dados de Sequência Molecular , Conformação Proteica , Ratos , Alinhamento de Sequência , Soluções
15.
J Biomol NMR ; 2(4): 323-34, 1992 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-1324756

RESUMO

Biosynthetically directed fractional incorporation of 13C into proteins results in nonrandom 13C-labeling patterns that can be investigated by analysis of the 13C-13C scalar coupling fine structures in heteronuclear 13C-1H or homonuclear 13C-13C correlation experiments. Previously this approach was used for obtaining stereospecific 1H and 13C assignments of the diastereotopic methyl groups of valine and leucine. In the present paper we investigate to what extent the labeling patterns are characteristic for other individual amino acids or groups of amino acids, and can thus be used to support the 1H spin-system identifications. Studies of the hydrolysates of fractionally 13C-labeled proteins showed that the 59 aliphatic carbon positions in the 20 proteinogenic amino acids exhibit 16 different types of 13C-13C coupling fine structures. These provide support for the assignment of the resonances of all methyl groups in a protein, which are otherwise often poorly resolved in homonuclear 1H NMR spectra. In particular, besides the individual methyl assignments in Val and Leu, unambiguous distinctions are obtained between the methyl groups of Ala and Thr, and between the gamma- and delta-methyl groups of Ile. In addition to the methyl resonances, the gamma CH2 groups of Glu and Gln can be uniquely assigned because of the large coupling constant with the delta-carbon, and the identification of most of the other spin systems can be supported on the basis of coupling patterns that are common to small groups of amino acid residues.


Assuntos
Isótopos de Carbono , Proteínas/química , Espectroscopia de Ressonância Magnética , Conformação Proteica , Prótons
16.
Biochem Biophys Res Commun ; 180(3): 1403-7, 1991 Nov 14.
Artigo em Inglês | MEDLINE | ID: mdl-1953786

RESUMO

An expression cassette has been constructed which allows expression of the ble gene isolated from Streptoalloteichus hindustanus in Dictyostelium discoideum. This construct has been shown to confer resistance to the bleomycin related antibiotic phleomycin. since the uptake of phleomycin by the cells is pH dependent, we established conditions that allow selection of phleomycin-resistant transformants. Vectors pfeI and pfeII contain, in addition to the cassette, a 592 bp fragment of the D. discoideum plasmid Ddp2 that enables the plasmids to replicate extrachromosomally in Dictyostelium when transformed into a strain that expresses a Ddp2-specific transacting factor (12). pfeI and pfeII contain various unique restriction enzyme sites for cloning. They differ in the G/C-content of the sequence upstream of the ATG start codon.


Assuntos
Bactérias Aeróbias/genética , Dictyostelium/genética , Resistência Microbiana a Medicamentos/genética , Genes Bacterianos , Bactérias Gram-Positivas/genética , Fleomicinas/farmacologia , Animais , Bactérias Aeróbias/efeitos dos fármacos , Sequência de Bases , Escherichia coli/genética , Proteínas Fúngicas/genética , Genes Fúngicos , Bactérias Gram-Positivas/efeitos dos fármacos , Dados de Sequência Molecular , Oligodesoxirribonucleotídeos , Reação em Cadeia da Polimerase , Mapeamento por Restrição , Homologia de Sequência do Ácido Nucleico
17.
Mol Cell Biol ; 10(7): 3727-36, 1990 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-2192261

RESUMO

Dictyostelium discoideum plasmid Ddp2 from the wild strain WS380B is a 5.8-kilobase (kb) supercoiled circle with a copy number of 300 per haploid genome. We previously described the construction of an extrachromosomally replicating transformation vector pnDeI carrying 4.7 kb of Ddp2 sequences (B. Leiting, and A. Noegel, Plasmid 20:241-248, 1988). In order to reduce the sequences required for extrachromosomal maintenance in D. discoideum, we characterized Ddp2 by sequence analysis, by deletion experiments, by transcription mapping, by electrophoretic mobility shift assays, and by expression of its single open reading frame in Escherichia coli. Two elements were involved in replication of Ddp2: a cis-acting sequence located on a 592-base-pair (bp) fragment that consisted of 220 bp of essential and 372 bp of auxiliary sequences, and a 2.7-kb open reading frame which most likely encodes a trans-acting factor. The cis- and trans-acting elements did not overlap and were shown to act independently from the location of the sequences encoding the trans-acting factor.


Assuntos
Replicação do DNA , Proteínas de Ligação a DNA/genética , Dictyostelium/genética , Proteínas Fúngicas/genética , Plasmídeos/genética , Proteínas de Protozoários , Sequência de Aminoácidos , Antígenos Virais/genética , Sequência de Bases , Clonagem Molecular , Antígenos Nucleares do Vírus Epstein-Barr , Escherichia coli/genética , Proteínas Fúngicas/biossíntese , Proteínas Fúngicas/metabolismo , Dados de Sequência Molecular , Proteínas Recombinantes de Fusão/biossíntese , Mapeamento por Restrição , Homologia de Sequência do Ácido Nucleico
19.
Plasmid ; 20(3): 241-8, 1988 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-3244804

RESUMO

An extrachromosomally replicating transformation vector for Dictyostelium discoideum has been constructed using sequences of the endogenous Dictyostelium plasmid Ddp2. This transformation vector pnDeI (9.6 kb) replicates as a high copy number plasmid in Dictyostelium and is located in the nucleus. It has been constructed as shuttle vector containing the Escherichia coli vector pUC19 for replication and selection in E. coli and a part of the Tn903 transposon which confers resistance to G418 for selection in Dictyostelium. In order to show that the vector can be used for cloning and stable propagation of Dictyostelium DNA, a fragment of the Dictyostelium alpha-actinin gene that was marked with a synthetic oligonucleotide was cloned into pnDeI and found to be stably maintained in the extrachromosomal vector without undergoing noticeable recombination with the endogenous gene.


Assuntos
Replicação do DNA , Dictyostelium/genética , Vetores Genéticos , Plasmídeos , DNA Fúngico/genética , DNA Fúngico/isolamento & purificação , Mapeamento por Restrição , Transformação Genética
20.
Carbohydr Res ; 180(2): 253-62, 1988 Sep 15.
Artigo em Inglês | MEDLINE | ID: mdl-3203343

RESUMO

The reaction of methyl 2,3,4,6-tetra-O-acetyl-1-O-trimethylsilyl-beta- and -alpha-D-glucopyranuronate severally with the dimethyl or diethyl acetals of formaldehyde, bromoacetaldehyde, propionaldehyde, 3-benzyloxypropionaldehyde, 5-carboxypentanal, and 2-bromohexanal in the presence of catalytic amounts of trimethylsilyl trifluoromethanesulfonate at -78 degrees gave the corresponding (1-alkoxyalkyl) alpha- and beta-glycosides (acetal-glucopyranosiduronates) with retention of configuration at C-1 in yields of 41-91%. Instead of the dialkyl acetals, the corresponding aldehydes and alkyl trimethylsilyl ether can be used. Deacetylation gave the corresponding methyl (acetal-beta- and -alpha-D-glucopyranosid)uronates in good yield. De-esterification of methyl [(1R)-1-methoxybutyl beta-D-glucopyranosid]uronate with esterase gave the acetal-beta-D-glucopyranosiduronic acid which was an excellent substrate for beta-D-glucuronidase.


Assuntos
Antineoplásicos/síntese química , Glucuronatos/síntese química , Glucuronatos/farmacologia , Estrutura Molecular , Pró-Fármacos/síntese química , Estereoisomerismo
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