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1.
Microbiome ; 10(1): 172, 2022 10 14.
Artículo en Inglés | MEDLINE | ID: mdl-36242054

RESUMEN

BACKGROUND: Candidatus Nanohaloarchaeota, an archaeal phylum within the DPANN superphylum, is characterized by limited metabolic capabilities and limited phylogenetic diversity and until recently has been considered to exclusively inhabit hypersaline environments due to an obligate association with Halobacteria. Aside from hypersaline environments, Ca. Nanohaloarchaeota can also have been discovered from deep-subsurface marine sediments. RESULTS: Three metagenome-assembled genomes (MAGs) representing a new order within the Ca. Nanohaloarchaeota were reconstructed from a stratified salt crust and proposed to represent a novel order, Nucleotidisoterales. Genomic features reveal them to be anaerobes capable of catabolizing nucleotides by coupling nucleotide salvage pathways with lower glycolysis to yield free energy. Comparative genomics demonstrated that these and other Ca. Nanohaloarchaeota inhabiting saline habitats use a "salt-in" strategy to maintain osmotic pressure based on the high proportion of acidic amino acids. In contrast, previously described Ca. Nanohaloarchaeota MAGs from geothermal environments were enriched with basic amino acids to counter heat stress. Evolutionary history reconstruction revealed that functional differentiation of energy conservation strategies drove diversification within Ca. Nanohaloarchaeota, further leading to shifts in the catabolic strategy from nucleotide degradation within deeper lineages to polysaccharide degradation within shallow lineages. CONCLUSIONS: This study provides deeper insight into the ecological functions and evolution of the expanded phylum Ca. Nanohaloarchaeota and further advances our understanding on the functional and genetic associations between potential symbionts and hosts. Video Abstract.


Asunto(s)
Archaea , Euryarchaeota , Aminoácidos Acídicos/genética , Aminoácidos Acídicos/metabolismo , Aminoácidos Básicos/genética , Aminoácidos Básicos/metabolismo , Euryarchaeota/genética , Metagenoma , Nucleótidos/metabolismo , Filogenia , Polisacáridos/metabolismo
2.
Microb Cell Fact ; 20(1): 228, 2021 Dec 23.
Artículo en Inglés | MEDLINE | ID: mdl-34949178

RESUMEN

BACKGROUND: Bio-based aromatic compounds are of great interest to the industry, as commercial production of aromatic compounds depends exclusively on the unsustainable use of fossil resources or extraction from plant resources. γ-amino acid 3-amino-4-hydroxybenzoic acid (3,4-AHBA) serves as a precursor for thermostable bioplastics. RESULTS: Under aerobic conditions, a recombinant Corynebacterium glutamicum strain KT01 expressing griH and griI genes derived from Streptomyces griseus produced 3,4-AHBA with large amounts of amino acids as by-products. The specific productivity of 3,4-AHBA increased with decreasing levels of dissolved oxygen (DO) and was eightfold higher under oxygen limitation (DO = 0 ppm) than under aerobic conditions (DO ≥ 2.6 ppm). Metabolic profiles during 3,4-AHBA production were compared at three different DO levels (0, 2.6, and 5.3 ppm) using the DO-stat method. Results of the metabolome analysis revealed metabolic shifts in both the central metabolic pathway and amino acid metabolism at a DO of < 33% saturated oxygen. Based on this metabolome analysis, metabolic pathways were rationally designed for oxygen limitation. An ldh deletion mutant, with the loss of lactate dehydrogenase, exhibited 3.7-fold higher specific productivity of 3,4-AHBA at DO = 0 ppm as compared to the parent strain KT01 and produced 5.6 g/L 3,4-AHBA in a glucose fed-batch culture. CONCLUSIONS: Our results revealed changes in the metabolic state in response to DO concentration and provided insights into oxygen supply during fermentation and the rational design of metabolic pathways for improved production of related amino acids and their derivatives.


Asunto(s)
Aminobenzoatos/metabolismo , Corynebacterium glutamicum/metabolismo , Hidroxibenzoatos/metabolismo , Ingeniería Metabólica/métodos , Oxígeno/metabolismo , Aminoácidos/metabolismo , Aminoácidos Acídicos/genética , Aminoácidos Acídicos/metabolismo , Proteínas Bacterianas/genética , Técnicas de Cultivo Celular por Lotes , Corynebacterium glutamicum/genética , Fermentación , Glucosa/metabolismo , L-Lactato Deshidrogenasa/genética , Redes y Vías Metabólicas , Metaboloma , Eliminación de Secuencia
3.
Mol Cell Biochem ; 468(1-2): 13-20, 2020 May.
Artículo en Inglés | MEDLINE | ID: mdl-32130622

RESUMEN

Mammalian Na+/H+ exchanger type I isoform (NHE1) is a ubiquitously expressed membrane protein that regulates intracellular pH (pHi) by removing one intracellular proton in exchange for one extracellular sodium ion. Abnormal activity of the protein occurs in cardiovascular disease and breast cancer. The purpose of this study is to examine the role of negatively charged amino acids of extracellular loop 3 (EL3) in the activity of the NHE protein. We mutated glutamic acid 217 and aspartic acid 226 to alanine, and to glutamine and asparagine, respectively. We examined effects on expression levels, cell surface targeting and activity of NHE1, and also characterized affinity for extracellular sodium and lithium ions. Individual mutation of these amino acids had little effect on protein function. However, mutation of both these amino acids together impaired transport, decreasing the Vmax for both Na+ and Li+ ions. We suggested that amino acids E217 and D226 form part of a negatively charged coordination sphere, which facilitates cation transport in the NHE1 protein.


Asunto(s)
Aminoácidos Acídicos/química , Proteínas de Transporte de Catión/química , Proteínas de Transporte de Catión/metabolismo , Membrana Celular/metabolismo , Intercambiadores de Sodio-Hidrógeno/química , Intercambiadores de Sodio-Hidrógeno/metabolismo , Aminoácidos Acídicos/genética , Animales , Proteínas de Transporte de Catión/genética , Línea Celular , Membrana Celular/química , Membrana Celular/genética , Cricetulus , Concentración de Iones de Hidrógeno , Transporte Iónico/genética , Modelos Moleculares , Mutagénesis Sitio-Dirigida , Mutación , Dominios Proteicos/genética , Intercambiador 1 de Sodio-Hidrógeno/química , Intercambiadores de Sodio-Hidrógeno/genética
4.
Commun Biol ; 3(1): 83, 2020 02 21.
Artículo en Inglés | MEDLINE | ID: mdl-32081916

RESUMEN

Plakin proteins form connections that link the cell membrane to the intermediate filament cytoskeleton. Their interactions are mediated by a highly conserved linker domain through an unresolved mechanism. Here analysis of the human periplakin linker domain structure reveals a bi-lobed module transected by an electropositive groove. Key basic residues within the periplakin groove are vital for co-localization with vimentin in human cells and compromise direct binding which also requires acidic residues D176 and E187 in vimentin. We propose a model whereby basic periplakin linker domain residues recognize acidic vimentin side chains and form a complementary binding groove. The model is shared amongst diverse linker domains and can be used to investigate the effects of pathogenic mutations in the desmoplakin linker associated with arrhythmogenic right ventricular cardiomyopathy. Linker modules either act solely or collaborate with adjacent plakin repeat domains to create strong and adaptable tethering within epithelia and cardiac muscle.


Asunto(s)
Plaquinas/química , Plaquinas/metabolismo , Vimentina/química , Vimentina/metabolismo , Secuencia de Aminoácidos , Aminoácidos Acídicos/química , Aminoácidos Acídicos/genética , Aminoácidos Acídicos/metabolismo , Ácido Aspártico/metabolismo , Ácido Glutámico/metabolismo , Células HeLa , Humanos , Filamentos Intermedios/química , Filamentos Intermedios/metabolismo , Modelos Moleculares , Mutación Missense , Plaquinas/genética , Unión Proteica/genética , Dominios y Motivos de Interacción de Proteínas/genética , Estructura Cuaternaria de Proteína , Vimentina/genética
5.
J Mol Biol ; 426(24): 3946-3959, 2014 Dec 12.
Artículo en Inglés | MEDLINE | ID: mdl-25315822

RESUMEN

Processing of Holliday junctions is essential in recombination. We have identified the gene for the junction-resolving enzyme GEN1 from the thermophilic fungus Chaetomium thermophilum and expressed the N-terminal 487-amino-acid section. The protein is a nuclease that is highly selective for four-way DNA junctions, cleaving 1nt 3' to the point of strand exchange on two strands symmetrically disposed about a diagonal axis. CtGEN1 binds to DNA junctions as a discrete homodimer with nanomolar affinity. Analysis of the kinetics of cruciform cleavage shows that cleavage of the second strand occurs an order of magnitude faster than the first cleavage so as to generate a productive resolution event. All these properties are closely similar to those described for bacterial, phage and mitochondrial junction-resolving enzymes. CtGEN1 is also similar in properties to the human enzyme but lacks the problems with aggregation that currently prevent detailed analysis of the latter protein. CtGEN1 is thus an excellent enzyme with which to engage in biophysical and structural analysis of eukaryotic GEN1.


Asunto(s)
Chaetomium/enzimología , ADN Cruciforme/metabolismo , Proteínas Fúngicas/metabolismo , Resolvasas de Unión Holliday/metabolismo , Algoritmos , Secuencia de Aminoácidos , Aminoácidos Acídicos/genética , Aminoácidos Acídicos/metabolismo , Secuencia de Bases , Unión Competitiva , Chaetomium/genética , ADN Cruciforme/química , ADN Cruciforme/genética , Proteínas Fúngicas/química , Proteínas Fúngicas/genética , Resolvasas de Unión Holliday/clasificación , Resolvasas de Unión Holliday/genética , Hidrólisis , Cinética , Modelos Genéticos , Modelos Moleculares , Datos de Secuencia Molecular , Mutación , Conformación de Ácido Nucleico , Filogenia , Unión Proteica , Multimerización de Proteína , Homología de Secuencia de Aminoácido
6.
J Gen Physiol ; 143(5): 645-56, 2014 May.
Artículo en Inglés | MEDLINE | ID: mdl-24778431

RESUMEN

Voltage-gated sodium (NaV) channels mediate electrical excitability in animals. Despite strong sequence conservation among the voltage-sensor domains (VSDs) of closely related voltage-gated potassium (KV) and NaV channels, the functional contributions of individual side chains in Nav VSDs remain largely enigmatic. To this end, natural and unnatural side chain substitutions were made in the S2 hydrophobic core (HC), the extracellular negative charge cluster (ENC), and the intracellular negative charge cluster (INC) of the four VSDs of the skeletal muscle sodium channel isoform (NaV1.4). The results show that the highly conserved aromatic side chain constituting the S2 HC makes distinct functional contributions in each of the four NaV domains. No obvious cation-pi interaction exists with nearby S4 charges in any domain, and natural and unnatural mutations at these aromatic sites produce functional phenotypes that are different from those observed previously in Kv VSDs. In contrast, and similar to results obtained with Kv channels, individually neutralizing acidic side chains with synthetic derivatives and with natural amino acid substitutions in the INC had little or no effect on the voltage dependence of activation in any of the four domains. Interestingly, countercharge was found to play an important functional role in the ENC of DI and DII, but not DIII and DIV. These results suggest that electrostatic interactions with S4 gating charges are unlikely in the INC and only relevant in the ENC of DI and DII. Collectively, our data highlight domain-specific functional contributions of highly conserved side chains in NaV VSDs.


Asunto(s)
Aminoácidos Acídicos/química , Aminoácidos Aromáticos/química , Activación del Canal Iónico , Proteínas Musculares/química , Canales de Sodio/química , Secuencia de Aminoácidos , Sustitución de Aminoácidos , Aminoácidos Acídicos/genética , Aminoácidos Aromáticos/genética , Animales , Potenciales de la Membrana , Datos de Secuencia Molecular , Proteínas Musculares/genética , Proteínas Musculares/metabolismo , Estructura Terciaria de Proteína , Ratas , Canales de Sodio/genética , Canales de Sodio/metabolismo , Xenopus
7.
Gene ; 515(2): 277-80, 2013 Feb 25.
Artículo en Inglés | MEDLINE | ID: mdl-23266628

RESUMEN

There has been an increasing interest in biased regions in proteins especially ever since it was shown that such regions are frequently associated with a structural role in the cell, or with protein disorder. In this study, we focus on charged biased protein sequences in human genome. We have identified 446 charged biased proteins within human proteome, 70% of them constitute proteins harboring negative run that correspond to transcription factor zinc finger proteins, importins and some protein kinases involving acidic activating domains. Basic charge clusters are often associated with DNA-binding, zinc-finger, basic-leucine zipper and homeobox domains. The data show that significant positive clusters correspond to ribosomal proteins. Most of proteins with zinc-binding fingers have a mixed positive and negative charged biased regions. Altogether, the Gene Ontology analysis revealed that the charged proteins are involved mainly in regulatory functions.


Asunto(s)
Proteoma/química , Análisis de Secuencia de Proteína , Algoritmos , Secuencia de Aminoácidos , Aminoácidos Acídicos/química , Aminoácidos Acídicos/genética , Aminoácidos Básicos/química , Aminoácidos Básicos/genética , Mapeo Cromosómico , Cromosomas Humanos , Humanos , Modelos Biológicos , Anotación de Secuencia Molecular , Estructura Terciaria de Proteína , Proteoma/genética
8.
J Mol Biol ; 411(2): 313-20, 2011 Aug 12.
Artículo en Inglés | MEDLINE | ID: mdl-21683710

RESUMEN

Hsp40-like co-chaperones are ubiquitous enzymes that stimulate the protein refolding activity of Hsp70 family chaperones. They are widespread in prokaryotic and eukaryotic systems. In bacteria, the best characterized co-chaperone is the Escherichia coli DnaJ protein. Many γ-proteobacteria encode a functional homologue of DnaJ, known as CbpA, which is expressed in response to starvation and environmental stress. The activity of CbpA is regulated by the "modulator" protein CbpM. Here, we have used a combination of genetics and biochemistry to identify the co-chaperone contact determinant of CbpM. We show that the nature of the interaction is conserved in enterobacteria.


Asunto(s)
Aminoácidos Acídicos/metabolismo , Proteínas Bacterianas/metabolismo , Proteínas Portadoras/metabolismo , Secuencia Conservada , Enterobacteriaceae/enzimología , Proteínas de Escherichia coli/metabolismo , Proteínas del Choque Térmico HSP40/metabolismo , Aminoácidos Acídicos/genética , Proteínas Bacterianas/genética , Enterobacteriaceae/genética , Enterobacteriaceae/metabolismo , Proteínas de Escherichia coli/genética , Proteínas del Choque Térmico HSP40/genética , Filogenia , Unión Proteica , Mapeo de Interacción de Proteínas , Homología de Secuencia de Aminoácido
9.
J Cell Sci ; 123(Pt 14): 2512-20, 2010 Jul 15.
Artículo en Inglés | MEDLINE | ID: mdl-20592187

RESUMEN

The P2Y(1) receptor is localized to the basolateral membrane of polarized Madin-Darby canine kidney (MDCK) cells. In the present study, we identified a 25-residue region within the C-terminal tail (C-tail) of the P2Y(1) receptor that directs basolateral sorting. Deletion of this sorting signal caused redirection of the receptor to the apical membrane, indicating that the region from the N-terminus to transmembrane domain 7 (TM7) contains an apical-sorting signal that is overridden by a dominant basolateral signal in the C-tail. Location of the signal relative to TM7 is crucial, because increasing its distance from the end of TM7 resulted in loss of basolateral sorting. The basolateral-sorting signal does not use any previously established basolateral-sorting motifs, i.e. tyrosine-containing or di-hydrophobic motifs, for function, and it is functional even when inverted or when its amino acids are scrambled, indicating that the signal is sequence independent. Mutagenesis of different classes of amino acids within the signal identified charged residues (five basic and four acidic amino acids in 25 residues) as crucial determinants for sorting function, with amidated amino acids having a lesser role. Mutational analyses revealed that whereas charge balance (+1 overall) of the signal is unimportant, the total number of charged residues (nine), either positive or negative, is crucial for basolateral targeting. These data define a new class of targeting signal that relies on total charge and might provide a common mechanism for polarized trafficking of epithelial proteins.


Asunto(s)
Aminoácidos Acídicos/química , Aminoácidos Básicos/química , Células Epiteliales/metabolismo , Señales de Clasificación de Proteína , Receptores Purinérgicos P2Y1/metabolismo , Secuencia de Aminoácidos/genética , Aminoácidos Acídicos/genética , Aminoácidos Básicos/genética , Animales , Línea Celular , Polaridad Celular/genética , Clonación Molecular , Perros , Células Epiteliales/patología , Riñón/patología , Datos de Secuencia Molecular , Mutagénesis Sitio-Dirigida , Mutación/genética , Señales de Clasificación de Proteína/genética , Estructura Terciaria de Proteína/genética , Transporte de Proteínas/genética , Receptores Purinérgicos P2Y1/química , Receptores Purinérgicos P2Y1/genética
10.
Channels (Austin) ; 3(6): 413-26, 2009 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-19806027

RESUMEN

Effects of neutralizing individual negatively charged (acidic [E,D]) and innermost positively charged (basic [K,R]) residues in transmembrane segments S2 (D230Q, E240Q), S3 (D263Q) and S4 (K299A/Q, R302A/Q) of the K(V)4.3 putative voltage sensing domain (VSD) were determined. S2 D230Q generated large macroscopic currents, depolarized steady-state activation ("a(4)") and isochronal (1 sec) inactivation ("i") relationships, and significantly accelerated kinetics of deactivation and recovery (from both macroscopic and closed state inactivation [CSI]). D230Q thus stabilized non-inactivated closed states. These effects were attributable to structural perturbations, and indicated D230 is not primarily involved in voltage sensing. Both S2 E240Q and S3 D263Q failed to generate measurable ionic currents, suggesting deletion of negative charges at these putatively more intracellular acidic positions were functionally "lethal" to macroscopic K(V)4.3 function. S4 innermost positive charge deletion mutants K299A/Q and R032A/Q generated functional currents with reduced peak amplitudes. While reduced K299A/Q and R302A/Q currents prevented accurate determination of "a(4)" and estimates of potential electrostatic perturbations, both sets of mutants: (i) depolarized potentials at which currents could be macroscopically detected, consistent with stabilization of closed states (structural perturbations); and (ii) accelerated macroscopic recovery. These results provide further evidence that: (i) basic residues in S4 are involved not only in regulating K(V)4.3 activation and deactivation, but also CSI and recovery; and (ii) suggest putative electrostatic interactions between acidic S2/S3 and basic S4 residues may be different in K(V)4.3 from those proposed to exist in Shaker. Functional implications are discussed.


Asunto(s)
Sustitución de Aminoácidos , Aminoácidos Acídicos/genética , Aminoácidos Básicos/genética , Activación del Canal Iónico , Canales de Potasio Shal/química , Canales de Potasio Shal/metabolismo , Electricidad Estática , Animales , Hurones , Corazón/fisiología , Cinética , Potenciales de la Membrana , Estructura Terciaria de Proteína
11.
Traffic ; 10(10): 1481-7, 2009 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-19659502

RESUMEN

For a number of ion channels, including the potassium (K(+)) inward rectifying channel from Arabidopsis thaliana (KAT1), diacidic endoplasmic reticulum (ER) export motifs have been identified. These motifs consist of two acidic amino acids (aspartate (D) and/or glutamate (E)) separated by any amino acid. To specify the role of single acidic amino acids for efficiency of ER export, we analysed a sequence of KAT1 that included the originally identified diacidic ER export motif (DxE) plus an additional D just upstream of the diacidic motif. Analysis of single, double and triple mutations of the acidic amino acids of the DxDxE motif revealed a gradual reduction of ER export depending on the number of mutated acidic residues. The amount of reduction in ER export was not related to the position, but only to the number of mutated acidic amino acids. These results show that a triacidic motif is essential for efficient ER export of KAT1. Function of the triacidic motif probably involves cooperative binding to Sec24.


Asunto(s)
Aminoácidos Acídicos/metabolismo , Proteínas de Arabidopsis/metabolismo , Arabidopsis/metabolismo , Retículo Endoplásmico/metabolismo , Canales de Potasio de Rectificación Interna/metabolismo , Secuencias de Aminoácidos , Secuencia de Aminoácidos , Aminoácidos Acídicos/genética , Proteínas de Arabidopsis/genética , Ácido Aspártico/genética , Ácido Aspártico/metabolismo , Vesículas Cubiertas por Proteínas de Revestimiento/metabolismo , Línea Celular , Membrana Celular/metabolismo , Secuencia Conservada , Ácido Glutámico/genética , Ácido Glutámico/metabolismo , Humanos , Potenciales de la Membrana , Proteínas de la Membrana/metabolismo , Microscopía Confocal , Microscopía Fluorescente , Datos de Secuencia Molecular , Mutación , Técnicas de Placa-Clamp , Canales de Potasio de Rectificación Interna/genética , Unión Proteica , Transporte de Proteínas , Proteínas de Saccharomyces cerevisiae/metabolismo , Transfección
12.
J Biol Chem ; 284(11): 6966-71, 2009 Mar 13.
Artículo en Inglés | MEDLINE | ID: mdl-19129186

RESUMEN

The largest family of solute transporters includes ion motive force-driven secondary transporters. Several well characterized solute-specific transport systems in this group have at least one irreplaceable acidic residue that plays a critical role in energy coupling during transport. Previous studies have established the importance of acidic residues in substrate recognition by major facilitator superfamily secondary multidrug transporters, but their role in the transport mechanism remained unknown. We have been investigating the involvement of acidic residues in the mechanism of MdfA, an Escherichia coli secondary multidrug/proton antiporter. We demonstrated that no single negatively charged side chain plays an irreplaceable role in MdfA. Accordingly, we hypothesized that MdfA might be able to utilize at least two acidic residues alternatively. In this study, we present evidence that indeed, unlike solute-specific secondary transporters, MdfA tolerates displacements of an essential negative charge to various locations in the putative drug translocation pathway. The results suggest that MdfA utilizes a proton translocation strategy that is less sensitive to perturbations in the geometry of the proton-binding site, further illustrating the exceptional structural promiscuity of multidrug transporters.


Asunto(s)
Aminoácidos Acídicos/metabolismo , Antiportadores/metabolismo , Farmacorresistencia Bacteriana Múltiple/fisiología , Proteínas de Escherichia coli/metabolismo , Escherichia coli/metabolismo , Proteínas de Transporte de Membrana/metabolismo , Aminoácidos Acídicos/genética , Antiportadores/genética , Sitios de Unión/fisiología , Escherichia coli/genética , Proteínas de Escherichia coli/genética , Proteínas de Transporte de Membrana/genética , Estructura Terciaria de Proteína/fisiología
13.
Biochemistry ; 48(6): 1305-14, 2009 Feb 17.
Artículo en Inglés | MEDLINE | ID: mdl-19166325

RESUMEN

Despite predicted energetic penalties, the charged K84 side chains of tetrameric lactose repressor protein (LacI) are found buried within the highly hydrophobic monomer.monomer interface that includes side chains of V94 and V96. Once inducer binding has occurred, these K84 side chains move to interact with the more solvent-exposed side chains of D88 and E100'. Previous studies demonstrated that hydrophobic substitutions for K84 increased protein stability and significantly impaired the allosteric response. These results indicated that enhanced hydrophobic interactions at the monomer.monomer interface remove the energetic driving force of the buried charges, decreasing the likelihood of a robust conformational change and stabilizing the structure. We hypothesized that creating a salt bridge network with the lysine side chains by including nearby negatively charged residues might result in a similar outcome. To that end, acidic residues, D and E, and their neutral amides, N and Q, were substituted for the valines at positions 94 and 96. These variants exhibited one or more of the following functional changes: weakened inducer binding, impaired allosteric response, and diminished protein stability. For V96D and V96E, ion pair formation with K84 appears optimal, and the loss of inducer response exceeds that of the hydrophobic K84A and -L variants. However, impacts on functional properties indicate that stabilizing the buried positive charge with polar or ion pair interactions is not functionally equivalent to structural stabilization via hydrophobic enhancement.


Asunto(s)
Sustitución de Aminoácidos/genética , Aminoácidos Acídicos/genética , Proteínas Bacterianas/genética , Interacciones Hidrofóbicas e Hidrofílicas , Lisina/metabolismo , Proteínas Represoras/genética , Sustitución de Aminoácidos/efectos de los fármacos , Proteínas Bacterianas/química , Proteínas Bacterianas/metabolismo , ADN Bacteriano/metabolismo , Fluorescencia , Isopropil Tiogalactósido/metabolismo , Represoras Lac , Modelos Moleculares , Proteínas Mutantes/química , Proteínas Mutantes/metabolismo , Mutación/genética , Regiones Operadoras Genéticas , Unión Proteica/efectos de los fármacos , Desnaturalización Proteica/efectos de los fármacos , Pliegue de Proteína/efectos de los fármacos , Multimerización de Proteína/efectos de los fármacos , Estabilidad Proteica/efectos de los fármacos , Subunidades de Proteína/química , Subunidades de Proteína/metabolismo , Proteínas Represoras/química , Proteínas Represoras/metabolismo , Urea/farmacología
14.
J Biol Chem ; 284(11): 6826-31, 2009 Mar 13.
Artículo en Inglés | MEDLINE | ID: mdl-19106102

RESUMEN

In mouse Paneth cells, alpha-defensins, termed cryptdins (Crps), are activated by matrix metalloproteinase-7-mediated proteolysis of inactive precursors (pro-Crps) to bactericidal forms. The activating cleavage step at Ser(43) downward arrow Ile(44) in mouse pro-Crp4-(20-92) removes nine acidic amino acids that collectively block the membrane-disruptive behavior of the Crp4 moiety of the proform. This inhibitory mechanism has been investigated further to identify whether specific cluster(s) of electronegative amino acids in pro-Crp4-(20-43) are responsible for blocking bactericidal activity and membrane disruption. To test whether specific cluster(s) of electronegative amino acids in pro-Crp4-(20-43) have specific positional effects that block bactericidal peptide activity and membrane disruption, acidic residues positioned at the distal (Asp(20), Asp(26), Glu(27), and Glu(28)), mid (Glu(32) and Glu(33)), and proximal (Glu(37), Glu(38), and Asp(39)) clusters in pro-Crp4-(20-92) were mutagenized, and variants were assayed for differential effects of mutagenesis on bactericidal peptide activity. Substitution of the mid and proximal Asp and Glu clusters with Gly produced additive effects with respect to the induction of both bactericidal activity and membrane permeabilization of live Escherichia coli ML35 cells. In contrast, substitution of distal Glu and Asp residues with Gly or their deletion resulted in pro-Crp4-(20-92) variants with bactericidal and membrane-disruptive activities equal to or greater than that of fully mature Crp4. These findings support the conclusion that the most distal N-terminal anionic residues of pro-Crp4-(20-92) are primarily responsible for blocking Crp4-mediated membrane disruption in the precursor.


Asunto(s)
Sustitución de Aminoácidos , Aminoácidos Acídicos/química , Precursores de Proteínas/química , alfa-Defensinas/química , Secuencia de Aminoácidos/fisiología , Aminoácidos Acídicos/genética , Aminoácidos Acídicos/metabolismo , Animales , Permeabilidad de la Membrana Celular/efectos de los fármacos , Escherichia coli/crecimiento & desarrollo , Metaloproteinasa 7 de la Matriz/química , Metaloproteinasa 7 de la Matriz/metabolismo , Ratones , Células de Paneth/metabolismo , Precursores de Proteínas/genética , Precursores de Proteínas/metabolismo , Precursores de Proteínas/farmacología , alfa-Defensinas/genética , alfa-Defensinas/metabolismo , alfa-Defensinas/farmacología
15.
Protein Sci ; 17(9): 1603-10, 2008 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-18573868

RESUMEN

Nucleoside diphosphate kinase from Halomonas sp. 593 (HaNDK) exhibits halophilic characteristics. Residues 134 and 135 in the carboxy-terminal region of HaNDK are Glu-Glu, while those of its homologous counterpart of non-halophilic Pseudomonas NDK (PaNDK) are Ala-Ala. The double mutation, E134A-E135A, in HaNDK results in the loss of the halophilic characteristics, and, conversely, the double mutation of A134E-A135E in PaNDK confers halophilic characters to this enzyme, indicating that the charged state of these two residues that are located in the C-terminal region plays a critical role in determining halophilic characteristics. The importance of these two residues versus the net negative charges will be discussed in relation to the halophilicity of NDK.


Asunto(s)
Aminoácidos Acídicos/metabolismo , Halomonas/enzimología , Nucleósido-Difosfato Quinasa/química , Ingeniería de Proteínas , Pseudomonas/enzimología , Secuencia de Aminoácidos , Aminoácidos Acídicos/genética , Relación Dosis-Respuesta a Droga , Estabilidad de Enzimas , Escherichia coli/genética , Calor , Punto Isoeléctrico , Datos de Secuencia Molecular , Peso Molecular , Mutación , Nucleósido-Difosfato Quinasa/genética , Nucleósido-Difosfato Quinasa/aislamiento & purificación , Nucleósido-Difosfato Quinasa/metabolismo , Desnaturalización Proteica , Renaturación de Proteína , Estructura Secundaria de Proteína , Cloruro de Sodio/farmacología , Solubilidad , Factores de Tiempo
16.
Mol Genet Metab ; 94(2): 178-89, 2008 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-18359257

RESUMEN

We have tested an acidic oligopeptide-based targeting system for delivery of enzymes to tissues, especially bone and brain, in a murine mucopolysaccharidosis type VII (MPS VII) model. This strategy is based upon tagging a short peptide consisting of acidic amino acids (AAA) to N terminus of human beta-glucuronidase (GUS). The pharmacokinetics, biodistribution, and the pathological effect on MPS VII mouse after 12 weekly infusions were determined for recombinant human untagged and tagged GUS. The tagged GUS was taken up by MPS VII fibroblasts in a mannose 6-phosphate receptor-dependent manner. Intravenously injected AAA-tagged enzyme had five times more prolonged blood clearance compared with the untagged enzyme. The tagged enzyme was delivered effectively to bone, bone marrow, and brain in MPS VII mice and was effective in reversing the storage pathology. The storage in osteoblasts was cleared similarly with both enzyme types. However, cartilage showed a little response to any of the enzymes. The tagged enzyme reduced storage in cortical neurons, hippocampus, and glia cells. A highly sensitive method of tandem mass spectrometry on serum indicated that the concentration of serum dermatan sulfate and heparan sulfate in mice treated with the tagged enzyme decreased more than the untagged enzyme. These preclinical studies suggest that this AAA-based targeting system may enhance enzyme-replacement therapy.


Asunto(s)
Aminoácidos Acídicos/uso terapéutico , Glucuronidasa/metabolismo , Mucopolisacaridosis VII/tratamiento farmacológico , Aminoácidos Acídicos/genética , Animales , Células CHO , Línea Celular , Cricetinae , Cricetulus , Modelos Animales de Enfermedad , Marcación de Gen , Glucuronidasa/administración & dosificación , Glucuronidasa/genética , Humanos , Lisosomas/enzimología , Ratones , Ratones Transgénicos , Mucopolisacaridosis VII/enzimología , Mucopolisacaridosis VII/genética , Mucopolisacaridosis VII/metabolismo , Péptidos/genética , Proteínas Recombinantes de Fusión/administración & dosificación , Proteínas Recombinantes de Fusión/genética , Proteínas Recombinantes de Fusión/metabolismo , Proteínas Recombinantes de Fusión/uso terapéutico
17.
Arch Biochem Biophys ; 471(2): 215-23, 2008 Mar 15.
Artículo en Inglés | MEDLINE | ID: mdl-18242161

RESUMEN

The aryl hydrocarbon receptor (AhR) is a ligand inducible transcription factor that exhibits interspecies differences, with the human and mouse AhR C-terminal transactivation domain sharing only 58% amino acid sequence identity. The AhR has a transactivation domain comprised of proline/serine/threonine-rich, glutamine-rich, and acidic amino acid subdomains. A truncated mAhR and hAhR containing only the acidic subdomain displayed widely differing transactivation potentials. Whether the glutamine-rich subdomain of the mouse AhR and the human AhR differentially recruit LXXLL-motif coactivators was investigated. Transiently expressed GAL4 DNA binding domain (GAL4DBD)-LXXLL-motif fusion proteins were used to map the critical LXXLL binding sequence of the hAhR to amino acid residues 663-688. Several LXXLL-motif GAL4DBD fusion proteins dramatically differed in their ability to influence the transactivation potential of the mAhR and hAhR. These findings suggest that the human and mouse AhR may display differential recruitment of coactivators and hence may exhibit divergent regulation of target genes.


Asunto(s)
Secuencias de Aminoácidos , Receptores de Hidrocarburo de Aril/metabolismo , Secuencia de Aminoácidos , Aminoácidos Acídicos/genética , Aminoácidos Acídicos/metabolismo , Animales , Secuencia de Bases , Factores de Transcripción con Motivo Hélice-Asa-Hélice Básico , Proteínas de Unión al ADN/genética , Proteínas de Unión al ADN/metabolismo , Glutamina/genética , Glutamina/metabolismo , Humanos , Ratones , Datos de Secuencia Molecular , Prolina/genética , Prolina/metabolismo , Receptores de Hidrocarburo de Aril/genética , Proteínas Recombinantes de Fusión/genética , Proteínas Recombinantes de Fusión/metabolismo , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Proteínas de Saccharomyces cerevisiae/genética , Proteínas de Saccharomyces cerevisiae/metabolismo , Serina/genética , Serina/metabolismo , Treonina/genética , Treonina/metabolismo , Factores de Transcripción/genética , Factores de Transcripción/metabolismo , Activación Transcripcional
18.
J Bacteriol ; 189(17): 6437-46, 2007 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-17601786

RESUMEN

Magnetotactic bacteria navigate along the earth's magnetic field using chains of magnetosomes, which are intracellular organelles comprising membrane-enclosed magnetite crystals. The assembly of highly ordered magnetosome chains is under genetic control and involves several specific proteins. Based on genetic and cryo-electron tomography studies, a model was recently proposed in which the acidic MamJ magnetosome protein attaches magnetosome vesicles to the actin-like cytoskeletal filament formed by MamK, thereby preventing magnetosome chains from collapsing. However, the exact functions as well as the mode of interaction between MamK and MamJ are unknown. Here, we demonstrate that several functional MamJ variants from Magnetospirillum gryphiswaldense and other magnetotactic bacteria share an acidic and repetitive central domain, which displays an unusual intra- and interspecies sequence polymorphism, probably caused by homologous recombination between identical copies of Glu- and Pro-rich repeats. Surprisingly, mamJ mutant alleles in which the central domain was deleted retained their potential to restore chain formation in a DeltamamJ mutant, suggesting that the acidic domain is not essential for MamJ's function. Results of two-hybrid experiments indicate that MamJ physically interacts with MamK, and two distinct sequence regions within MamJ were shown to be involved in binding to MamK. Mutant variants of MamJ lacking either of the binding domains were unable to functionally complement the DeltamamJ mutant. In addition, two-hybrid experiments suggest both MamK-binding domains of MamJ confer oligomerization of MamJ. In summary, our data reveal domains required for the functions of the MamJ protein in chain assembly and maintenance and provide the first experimental indications for a direct interaction between MamJ and the cytoskeletal filament protein MamK.


Asunto(s)
Proteínas Bacterianas/genética , Proteínas Bacterianas/metabolismo , Proteínas Bacterianas/fisiología , Magnetospirillum/genética , Magnetospirillum/metabolismo , Proteínas de Microfilamentos/metabolismo , Proteínas de Microfilamentos/fisiología , Orgánulos/metabolismo , Aminoácidos Acídicos/genética , Proteínas Bacterianas/química , Sitios de Unión/genética , Eliminación de Gen , Prueba de Complementación Genética , Proteínas de Microfilamentos/genética , Polimorfismo Genético , Unión Proteica , Estructura Terciaria de Proteína/genética , Secuencias Repetitivas de Ácidos Nucleicos , Eliminación de Secuencia , Homología de Secuencia de Aminoácido , Técnicas del Sistema de Dos Híbridos
19.
Traffic ; 8(8): 1093-100, 2007 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-17547699

RESUMEN

We have characterized a sequence motif, EDE, in the proximal C-terminus of the acid-sensitive potassium channel TASK-3. Human TASK-3 channels were expressed in Xenopus oocytes, and the density of the channels at the surface membrane was studied with two complementary techniques: a luminometric surface expression assay of hemagglutinin epitope-tagged TASK-3 channels and voltage-clamp measurements of the acid-sensitive potassium current. Both approaches showed that mutation of the two glutamate residues of the EDE motif to alanine (ADA mutant) markedly reduced the transport of TASK-3 channels to the cell surface. Mutation of the central aspartate of the EDE motif had no effect on surface expression. The functional role of the EDE motif was further characterized in chimaeric constructs consisting of truncated Kir2.1 channels to which the C-terminus of TASK-3 was attached. In these constructs, too, replacement of the EDE motif by ADA strongly reduced surface expression. Live-cell imaging of enhanced green fluorescent protein-tagged channels expressed in COS-7 cells showed that 24 h after transfection wild-type TASK-3 was mainly localized to the cell surface whereas the ADA mutant was largely retained in the endoplasmic reticulum (ER). Mutation of a second di-acidic motif in the C-terminus of TASK-3 (DAE) had no effect on surface expression. Coexpression of TASK-3 with a GTP-restricted mutant of the coat recruitment GTPase Sar1 (Sar1H79G) resulted in ER retention of the channel. Our data suggest that the di-acidic motif, EDE, in human TASK-3 is a major determinant of the rate of ER export and is required for efficient surface expression of the channel.


Asunto(s)
Aminoácidos Acídicos/genética , Canales de Potasio de Dominio Poro en Tándem/genética , Secuencias de Aminoácidos/genética , Secuencia de Aminoácidos , Sustitución de Aminoácidos , Aminoácidos Acídicos/fisiología , Animales , Células COS , Bovinos , Chlorocebus aethiops , Perros , Retículo Endoplásmico/metabolismo , Cobayas , Humanos , Ratones , Datos de Secuencia Molecular , Canales de Potasio de Dominio Poro en Tándem/biosíntesis , Ratas , Xenopus laevis
20.
Traffic ; 8(4): 402-13, 2007 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-17319895

RESUMEN

The endocytic trafficking of the cation-independent mannose 6-phosphate receptor (CI-MPR) involves multiple sorting steps. A cluster of acidic amino acids followed by a dileucine motif in the cytoplasmic tail has been proposed to mediate receptor sorting from the trans Golgi network (TGN) to late endosomes. Mutations in this motif impair lysosomal enzyme sorting by preventing association of CI-MPR with coat proteins. The role of the acidic cluster/dileucine motif in the post-endocytic transport of the receptor was examined using the CI-MPR mutants, AC01 and D160E (Chen HJ, Yuan J, Lobel P. J Biol Chem 1997;272:7003-7012). Following internalization, wild type (WT) CI-MPR is transported through sorting endosomes into the endocytic recycling compartment (ERC), after which it traffics to the TGN and other organelles. However, the mutants localize mostly to the ERC and only a small portion reaches the TGN, suggesting that the sorting of the CI-MPR mutants from the ERC into the TGN is severely impaired. We observed no defect in receptor internalization or in the rate of tail mutant recycling to the cell surface compared to the WT. These results demonstrate that the acidic cluster/dileucine motif of CI-MPR is critical for receptor sorting at early stages of intracellular transport following endocytosis.


Asunto(s)
Aminoácidos Acídicos/metabolismo , Leucina/metabolismo , Receptor IGF Tipo 2/metabolismo , Secuencias de Aminoácidos/fisiología , Aminoácidos Acídicos/genética , Animales , Células CHO , Cationes/metabolismo , Cricetinae , Cricetulus , Leucina/genética , Transporte de Proteínas/fisiología , Receptor IGF Tipo 2/genética
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