Your browser doesn't support javascript.
loading
Mostrar: 20 | 50 | 100
Resultados 1 - 20 de 181
Filtrar
Más filtros

Banco de datos
País/Región como asunto
Tipo del documento
Intervalo de año de publicación
1.
Cell ; 163(3): 607-19, 2015 Oct 22.
Artículo en Inglés | MEDLINE | ID: mdl-26456113

RESUMEN

Type VI secretion (T6S) influences the composition of microbial communities by catalyzing the delivery of toxins between adjacent bacterial cells. Here, we demonstrate that a T6S integral membrane toxin from Pseudomonas aeruginosa, Tse6, acts on target cells by degrading the universally essential dinucleotides NAD(+) and NADP(+). Structural analyses of Tse6 show that it resembles mono-ADP-ribosyltransferase proteins, such as diphtheria toxin, with the exception of a unique loop that both excludes proteinaceous ADP-ribose acceptors and contributes to hydrolysis. We find that entry of Tse6 into target cells requires its binding to an essential housekeeping protein, translation elongation factor Tu (EF-Tu). These proteins participate in a larger assembly that additionally directs toxin export and provides chaperone activity. Visualization of this complex by electron microscopy defines the architecture of a toxin-loaded T6S apparatus and provides mechanistic insight into intercellular membrane protein delivery between bacteria.


Asunto(s)
Toxinas Bacterianas/metabolismo , NAD+ Nucleosidasa/metabolismo , Factor Tu de Elongación Peptídica/metabolismo , Pseudomonas aeruginosa/metabolismo , Sistemas de Secreción Tipo VI/química , ADP Ribosa Transferasas/metabolismo , Toxinas Bacterianas/química , Modelos Moleculares , NAD/metabolismo , NAD+ Nucleosidasa/química , NADP/metabolismo , Factor Tu de Elongación Peptídica/química , Estructura Terciaria de Proteína , Pseudomonas aeruginosa/enzimología , Sistemas de Secreción Tipo VI/metabolismo
2.
Cell ; 136(1): 85-96, 2009 Jan 09.
Artículo en Inglés | MEDLINE | ID: mdl-19135891

RESUMEN

Condensins are key mediators of chromosome condensation across organisms. Like other condensins, the bacterial MukBEF condensin complex consists of an SMC family protein dimer containing two ATPase head domains, MukB, and two interacting subunits, MukE and MukF. We report complete structural views of the intersubunit interactions of this condensin along with ensuing studies that reveal a role for the ATPase activity of MukB. MukE and MukF together form an elongated dimeric frame, and MukF's C-terminal winged-helix domains (C-WHDs) bind MukB heads to constitute closed ring-like structures. Surprisingly, one of the two bound C-WHDs is forced to detach upon ATP-mediated engagement of MukB heads. This detachment reaction depends on the linker segment preceding the C-WHD, and mutations on the linker restrict cell growth. Thus ATP-dependent transient disruption of the MukB-MukF interaction, which creates openings in condensin ring structures, is likely to be a critical feature of the functional mechanism of condensins.


Asunto(s)
Adenosina Trifosfatasas/química , Bacterias/química , Proteínas Bacterianas/química , Proteínas de Unión al ADN/química , Complejos Multiproteicos/química , Adenosina Trifosfatasas/metabolismo , Adenosina Trifosfato , Bacterias/metabolismo , Proteínas Bacterianas/metabolismo , Sitios de Unión , ADN/metabolismo , Proteínas de Unión al ADN/metabolismo , Modelos Moleculares , Complejos Multiproteicos/metabolismo , Estructura Terciaria de Proteína
3.
Inorg Chem ; 62(29): 11618-11625, 2023 Jul 24.
Artículo en Inglés | MEDLINE | ID: mdl-37424080

RESUMEN

In order to investigate the effects of the secondary coordination sphere in fine-tuning redox potentials (E°') of type 1 blue copper (T1Cu) in cupredoxins, we have introduced M13F, M44F, and G116F mutations both individually and in combination in the secondary coordination sphere of the T1Cu center of azurin (Az) from Pseudomonas aeruginosa. These variants were found to differentially influence the E°' of T1Cu, with M13F Az decreasing E°', M44F Az increasing E°', and G116F Az showing a negligible effect. In addition, combining the M13F and M44F mutations increases E°' by 26 mV relative to WT-Az, which is very close to the combined effect of E°' by each mutation. Furthermore, combining G116F with either M13F or M44F mutation resulted in negative and positive cooperative effects, respectively. Crystal structures of M13F/M44F-Az, M13F/G116F-Az, and M44F/G116F-Az combined with that of G116F-Az reveal these changes arise from steric effects and fine-tuning of hydrogen bond networks around the copper-binding His117 residue. The insights gained from this study would provide another step toward the development of redox-active proteins with tunable redox properties for many biological and biotechnological applications.


Asunto(s)
Azurina , Azurina/química , Cobre/química , Fenilalanina/química , Modelos Moleculares , Mutación , Oxidación-Reducción , Pseudomonas aeruginosa/química
4.
Mol Cell ; 57(5): 901-911, 2015 Mar 05.
Artículo en Inglés | MEDLINE | ID: mdl-25702872

RESUMEN

The UCH37 deubiquitylase functions in two large and very different complexes, the 26S proteasome and the INO80 chromatin remodeler. We have performed biochemical characterization and determined crystal structures of UCH37 in complexes with RPN13 and NFRKB, which mediate its recruitment to the proteasome and INO80, respectively. RPN13 and NFRKB make similar contacts to the UCH37 C-terminal domain but quite different contacts to the catalytic UCH domain. RPN13 can activate UCH37 by disrupting dimerization, although physiologically relevant activation likely results from stabilization of a surface competent for ubiquitin binding and modulation of the active-site crossover loop. In contrast, NFRKB inhibits UCH37 by blocking the ubiquitin-binding site and by disrupting the enzyme active site. These findings reveal remarkable commonality in mechanisms of recruitment, yet very different mechanisms of regulating enzyme activity, and provide a foundation for understanding the roles of UCH37 in the unrelated proteasome and INO80 complexes.


Asunto(s)
Modelos Moleculares , Estructura Secundaria de Proteína , Estructura Terciaria de Proteína , Ubiquitina Tiolesterasa/química , Secuencia de Aminoácidos , Sitios de Unión/genética , Dominio Catalítico , Cristalografía por Rayos X , Proteínas de Unión al ADN/química , Proteínas de Unión al ADN/genética , Proteínas de Unión al ADN/metabolismo , Activación Enzimática , Humanos , Péptidos y Proteínas de Señalización Intracelular , Glicoproteínas de Membrana/química , Glicoproteínas de Membrana/genética , Glicoproteínas de Membrana/metabolismo , Datos de Secuencia Molecular , Complejos Multiproteicos/química , Complejos Multiproteicos/metabolismo , Complejo de la Endopetidasa Proteasomal/química , Complejo de la Endopetidasa Proteasomal/metabolismo , Unión Proteica , Multimerización de Proteína , Homología de Secuencia de Aminoácido , Ubiquitina/química , Ubiquitina/metabolismo , Ubiquitina Tiolesterasa/genética , Ubiquitina Tiolesterasa/metabolismo
5.
J Biol Chem ; 295(34): 11949-11962, 2020 08 21.
Artículo en Inglés | MEDLINE | ID: mdl-32601062

RESUMEN

Pel is a GalNAc-rich bacterial polysaccharide that contributes to the structure and function of Pseudomonas aeruginosa biofilms. The pelABCDEFG operon is highly conserved among diverse bacterial species, and Pel may therefore be a widespread biofilm determinant. Previous annotation of pel gene clusters has helped us identify an additional gene, pelX, that is present adjacent to pelABCDEFG in >100 different bacterial species. The pelX gene is predicted to encode a member of the short-chain dehydrogenase/reductase (SDR) superfamily, but its potential role in Pel-dependent biofilm formation is unknown. Herein, we have used Pseudomonas protegens Pf-5 as a model to elucidate PelX function as Pseudomonas aeruginosa lacks a pelX homologue in its pel gene cluster. We found that P. protegens forms Pel-dependent biofilms; however, despite expression of pelX under these conditions, biofilm formation was unaffected in a ΔpelX strain. This observation led us to identify a pelX paralogue, PFL_5533, which we designate here PgnE, that appears to be functionally redundant to pelX In line with this, a ΔpelX ΔpgnE double mutant was substantially impaired in its ability to form Pel-dependent biofilms. To understand the molecular basis for this observation, we determined the structure of PelX to 2.1 Å resolution. The structure revealed that PelX resembles UDP-GlcNAc C4-epimerases. Using 1H NMR analysis, we show that PelX catalyzes the epimerization between UDP-GlcNAc and UDP-GalNAc. Our results indicate that Pel-dependent biofilm formation requires a UDP-GlcNAc C4-epimerase that generates the UDP-GalNAc precursors required by the Pel synthase machinery for polymer production.


Asunto(s)
Proteínas Bacterianas/metabolismo , Biopelículas , Carbohidrato Epimerasas/metabolismo , Polisacáridos Bacterianos/metabolismo , Pseudomonas aeruginosa/fisiología , Pseudomonas/fisiología , Proteínas Bacterianas/genética , Carbohidrato Epimerasas/genética , Polisacáridos Bacterianos/genética , Uridina Difosfato N-Acetilglucosamina/genética , Uridina Difosfato N-Acetilglucosamina/metabolismo
6.
Dermatol Online J ; 27(9)2021 Sep 15.
Artículo en Inglés | MEDLINE | ID: mdl-34755978

RESUMEN

Immune checkpoint inhibitors, a relatively new class of drugs, are used to treat a variety of malignancies. These drugs have a known association with cutaneous side effects, such as bullous pemphigoid. Bullous pemphigoid is a pruritic blistering disorder that is caused by autoantibodies forming against the basement membrane of the epidermis. New research has shown that interleukin-4, interleukin-13, and eosinophils play a significant role in the pathogenesis of bullous pemphigoid. Dupilumab, an IL4 alpha receptor antagonist has been shown to reduce IL4 and IL13 in atopic dermatitis. We present a case of nivolumab-induced bullous pemphigoid that was successfully treated with dupilumab.


Asunto(s)
Anticuerpos Monoclonales Humanizados/uso terapéutico , Inhibidores de Puntos de Control Inmunológico/efectos adversos , Subunidad alfa del Receptor de Interleucina-4/antagonistas & inhibidores , Nivolumab/efectos adversos , Penfigoide Ampolloso/tratamiento farmacológico , Anciano , Anciano de 80 o más Años , Anticuerpos Monoclonales Humanizados/efectos adversos , Femenino , Humanos , Masculino , Melanoma/tratamiento farmacológico , Persona de Mediana Edad , Penfigoide Ampolloso/inducido químicamente , Penfigoide Ampolloso/patología , Piel/patología
7.
J Biol Chem ; 294(28): 10760-10772, 2019 07 12.
Artículo en Inglés | MEDLINE | ID: mdl-31167793

RESUMEN

During infection, the fungal pathogen Aspergillus fumigatus forms biofilms that enhance its resistance to antimicrobials and host defenses. An integral component of the biofilm matrix is galactosaminogalactan (GAG), a cationic polymer of α-1,4-linked galactose and partially deacetylated N-acetylgalactosamine (GalNAc). Recent studies have shown that recombinant hydrolase domains from Sph3, an A. fumigatus glycoside hydrolase involved in GAG synthesis, and PelA, a multifunctional protein from Pseudomonas aeruginosa involved in Pel polysaccharide biosynthesis, can degrade GAG, disrupt A. fumigatus biofilms, and attenuate fungal virulence in a mouse model of invasive aspergillosis. The molecular mechanisms by which these enzymes disrupt biofilms have not been defined. We hypothesized that the hydrolase domains of Sph3 and PelA (Sph3h and PelAh, respectively) share structural and functional similarities given their ability to degrade GAG and disrupt A. fumigatus biofilms. MALDI-TOF enzymatic fingerprinting and NMR experiments revealed that both proteins are retaining endo-α-1,4-N-acetylgalactosaminidases with a minimal substrate size of seven residues. The crystal structure of PelAh was solved to 1.54 Å and structure alignment to Sph3h revealed that the enzymes share similar catalytic site residues. However, differences in the substrate-binding clefts result in distinct enzyme-substrate interactions. PelAh hydrolyzed partially deacetylated substrates better than Sph3h, a finding that agrees well with PelAh's highly electronegative binding cleft versus the neutral surface present in Sph3h Our insight into PelAh's structure and function necessitate the creation of a new glycoside hydrolase family, GH166, whose structural and mechanistic features, along with those of GH135 (Sph3), are reported here.


Asunto(s)
Biopelículas/efectos de los fármacos , Glicósido Hidrolasas/metabolismo , Polisacárido Liasas/ultraestructura , Antiinfecciosos/metabolismo , Aspergillus fumigatus/metabolismo , Biopelículas/crecimiento & desarrollo , Dominio Catalítico , Proteínas Fúngicas/metabolismo , Hongos/metabolismo , Glicósido Hidrolasas/fisiología , Hidrólisis , Polisacárido Liasas/metabolismo , Polisacáridos/metabolismo , Pseudomonas aeruginosa/metabolismo , Espectrometría de Masa por Láser de Matriz Asistida de Ionización Desorción/métodos , Especificidad por Sustrato/fisiología , Virulencia
8.
PLoS Pathog ; 14(4): e1006998, 2018 04.
Artículo en Inglés | MEDLINE | ID: mdl-29684093

RESUMEN

Poly-ß(1,6)-N-acetyl-D-glucosamine (PNAG) is a major biofilm component of many pathogenic bacteria. The production, modification, and export of PNAG in Escherichia coli and Bordetella species require the protein products encoded by the pgaABCD operon. PgaB is a two-domain periplasmic protein that contains an N-terminal deacetylase domain and a C-terminal PNAG binding domain that is critical for export. However, the exact function of the PgaB C-terminal domain remains unclear. Herein, we show that the C-terminal domains of Bordetella bronchiseptica PgaB (PgaBBb) and E. coli PgaB (PgaBEc) function as glycoside hydrolases. These enzymes hydrolyze purified deacetylated PNAG (dPNAG) from Staphylococcus aureus, disrupt PNAG-dependent biofilms formed by Bordetella pertussis, Staphylococcus carnosus, Staphylococcus epidermidis, and E. coli, and potentiate bacterial killing by gentamicin. Furthermore, we found that PgaBBb was only able to hydrolyze PNAG produced in situ by the E. coli PgaCD synthase complex when an active deacetylase domain was present. Mass spectrometry analysis of the PgaB-hydrolyzed dPNAG substrate showed a GlcN-GlcNAc-GlcNAc motif at the new reducing end of detected fragments. Our 1.76 Å structure of the C-terminal domain of PgaBBb reveals a central cavity within an elongated surface groove that appears ideally suited to recognize the GlcN-GlcNAc-GlcNAc motif. The structure, in conjunction with molecular modeling and site directed mutagenesis led to the identification of the dPNAG binding subsites and D474 as the probable catalytic acid. This work expands the role of PgaB within the PNAG biosynthesis machinery, defines a new glycoside hydrolase family GH153, and identifies PgaB as a possible therapeutic agent for treating PNAG-dependent biofilm infections.


Asunto(s)
Amidohidrolasas/metabolismo , Biopelículas/crecimiento & desarrollo , Bordetella/enzimología , Proteínas de Escherichia coli/metabolismo , Escherichia coli/enzimología , Glicósido Hidrolasas/metabolismo , beta-Glucanos/química , Acetilación , Amidohidrolasas/química , Bordetella/crecimiento & desarrollo , Cristalografía por Rayos X , Escherichia coli/crecimiento & desarrollo , Proteínas de Escherichia coli/química , Glicósido Hidrolasas/química , Operón , Conformación Proteica , beta-Glucanos/metabolismo
9.
Nat Chem Biol ; 14(1): 79-85, 2018 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-29083419

RESUMEN

O-Acetylation of the secondary cell wall polysaccharides (SCWP) of the Bacillus cereus group of pathogens, which includes Bacillus anthracis, is essential for the proper attachment of surface-layer (S-layer) proteins to their cell walls. Using a variety of pseudosubstrates and a chemically synthesized analog of SCWP, we report here the identification of PatB1 as a SCWP O-acetyltransferase in Bacillus cereus. Additionally, we report the crystal structure of PatB1, which provides detailed insights into the mechanism of this enzyme and defines a novel subfamily of the SGNH family of esterases and lipases. We propose a model for the O-acetylation of SCWP requiring the translocation of acetyl groups from a cytoplasmic source across the plasma membrane by PatA1 and PatA2 for their transfer to SCWP by PatB1.


Asunto(s)
Acetiltransferasas/química , Acetiltransferasas/metabolismo , Bacillus cereus/metabolismo , Pared Celular/metabolismo , Modelos Biológicos , Polisacáridos Bacterianos/metabolismo , Acetilación , Acetiltransferasas/genética , Secuencia de Aminoácidos , Bacillus cereus/enzimología , Membrana Celular/metabolismo , Clonación Molecular , Citoplasma/metabolismo , Modelos Moleculares , Polisacáridos Bacterianos/química , Polisacáridos Bacterianos/genética , Conformación Proteica , Ingeniería de Proteínas , Transporte de Proteínas
10.
Proc Natl Acad Sci U S A ; 114(11): 2892-2897, 2017 03 14.
Artículo en Inglés | MEDLINE | ID: mdl-28242707

RESUMEN

Secreted polysaccharides are important functional and structural components of bacterial biofilms. The opportunistic pathogen Pseudomonas aeruginosa produces the cationic exopolysaccharide Pel, which protects bacteria from aminoglycoside antibiotics and contributes to biofilm architecture through ionic interactions with extracellular DNA. A bioinformatics analysis of genome databases suggests that gene clusters for Pel biosynthesis are present in >125 bacterial species, yet little is known about how this biofilm exopolysaccharide is synthesized and exported from the cell. In this work, we characterize PelC, an outer membrane lipoprotein essential for Pel production. Crystal structures of PelC from Geobacter metallireducens and Paraburkholderia phytofirmans coupled with structure-guided disulfide cross-linking in P. aeruginosa suggest that PelC assembles into a 12- subunit ring-shaped oligomer. In this arrangement, an aromatic belt in proximity to its lipidation site positions the highly electronegative surface of PelC toward the periplasm. PelC is structurally similar to the Escherichia coli amyloid exporter CsgG; however, unlike CsgG, PelC does not possess membrane-spanning segments required for polymer export across the outer membrane. We show that the multidomain protein PelB with a predicted C-terminal ß-barrel porin localizes to the outer membrane, and propose that PelC functions as an electronegative funnel to guide the positively charged Pel polysaccharide toward an exit channel formed by PelB. Together, our findings provide insight into the unique molecular architecture and export mechanism of the Pel apparatus, a widespread exopolysaccharide secretion system found in environmental and pathogenic bacteria.


Asunto(s)
Biología Computacional , Polisacárido Liasas/química , Polisacáridos Bacterianos/química , Pseudomonas aeruginosa/química , Biopelículas/crecimiento & desarrollo , Cristalografía por Rayos X , Regulación Bacteriana de la Expresión Génica , Genoma Bacteriano , Lipoproteínas/química , Lipoproteínas/genética , Periplasma/química , Periplasma/genética , Periplasma/metabolismo , Polisacárido Liasas/genética , Polisacáridos Bacterianos/genética , Pseudomonas aeruginosa/patogenicidad
11.
PLoS Pathog ; 13(10): e1006667, 2017 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-29077761

RESUMEN

The O-acetylation of the essential cell wall polymer peptidoglycan occurs in most Gram-positive bacterial pathogens, including species of Staphylococcus, Streptococcus and Enterococcus. This modification to peptidoglycan protects these pathogens from the lytic action of the lysozymes of innate immunity systems and, as such, is recognized as a virulence factor. The key enzyme involved, peptidoglycan O-acetyltransferase A (OatA) represents a particular challenge to biochemical study since it is a membrane associated protein whose substrate is the insoluble peptidoglycan cell wall polymer. OatA is predicted to be bimodular, being comprised of an N-terminal integral membrane domain linked to a C-terminal extracytoplasmic domain. We present herein the first biochemical and kinetic characterization of the C-terminal catalytic domain of OatA from two important human pathogens, Staphylococcus aureus and Streptococcus pneumoniae. Using both pseudosubstrates and novel biosynthetically-prepared peptidoglycan polymers, we characterized distinct substrate specificities for the two enzymes. In addition, the high resolution crystal structure of the C-terminal domain reveals an SGNH/GDSL-like hydrolase fold with a catalytic triad of amino acids but with a non-canonical oxyanion hole structure. Site-specific replacements confirmed the identity of the catalytic and oxyanion hole residues. A model is presented for the O-acetylation of peptidoglycan whereby the translocation of acetyl groups from a cytoplasmic source across the cytoplasmic membrane is catalyzed by the N-terminal domain of OatA for their transfer to peptidoglycan by its C-terminal domain. This study on the structure-function relationship of OatA provides a molecular and mechanistic understanding of this bacterial resistance mechanism opening the prospect for novel chemotherapeutic exploration to enhance innate immunity protection against Gram-positive pathogens.


Asunto(s)
Acetiltransferasas/metabolismo , Bacterias Grampositivas/metabolismo , Peptidoglicano/metabolismo , Staphylococcus aureus/efectos de los fármacos , Factores de Virulencia/metabolismo , Proteínas Bacterianas/metabolismo , Pared Celular/metabolismo , Resistencia a Medicamentos , Humanos , Peptidoglicano/farmacología , Staphylococcus aureus/patogenicidad , Especificidad por Sustrato/inmunología , Virulencia
13.
J Biol Chem ; 292(23): 9493-9504, 2017 06 09.
Artículo en Inglés | MEDLINE | ID: mdl-28442575

RESUMEN

The 26S proteasome is a large cellular assembly that mediates the selective degradation of proteins in the nucleus and cytosol and is an established target for anticancer therapeutics. Protein substrates are typically targeted to the proteasome through modification with a polyubiquitin chain, which can be recognized by several proteasome-associated ubiquitin receptors. One of these receptors, RPN13/ADRM1, is recruited to the proteasome through direct interaction with the large scaffolding protein RPN2 within the 19S regulatory particle. To better understand the interactions between RPN13, RPN2, and ubiquitin, we used human proteins to map the RPN13-binding epitope to the C-terminal 14 residues of RPN2, which, like ubiquitin, binds the N-terminal pleckstrin-like receptor of ubiquitin (PRU) domain of RPN13. We also report the crystal structures of the RPN13 PRU domain in complex with peptides corresponding to the RPN2 C terminus and ubiquitin. Through mutational analysis, we validated the RPN2-binding interface revealed by our structures and quantified binding interactions with surface plasmon resonance and fluorescence polarization. In contrast to a previous report, we find that RPN13 binds ubiquitin with an affinity similar to that of other proteasome-associated ubiquitin receptors and that RPN2, ubiquitin, and the deubiquitylase UCH37 bind to RPN13 with independent energetics. These findings provide a detailed characterization of interactions that are important for proteasome function, indicate ubiquitin affinities that are consistent with the role of RPN13 as a proteasomal ubiquitin receptor, and have major implications for the development of novel anticancer therapeutics.


Asunto(s)
Epítopos/química , Glicoproteínas de Membrana/química , Complejo de la Endopetidasa Proteasomal/química , Ubiquitina/química , Sustitución de Aminoácidos , Epítopos/genética , Epítopos/metabolismo , Humanos , Péptidos y Proteínas de Señalización Intracelular , Glicoproteínas de Membrana/genética , Glicoproteínas de Membrana/metabolismo , Mutación Missense , Complejo de la Endopetidasa Proteasomal/genética , Complejo de la Endopetidasa Proteasomal/metabolismo , Dominios Proteicos , Relación Estructura-Actividad , Resonancia por Plasmón de Superficie , Ubiquitina/genética , Ubiquitina/metabolismo , Ubiquitina Tiolesterasa/química , Ubiquitina Tiolesterasa/genética , Ubiquitina Tiolesterasa/metabolismo
14.
Mol Cell ; 37(5): 728-35, 2010 Mar 12.
Artículo en Inglés | MEDLINE | ID: mdl-20227375

RESUMEN

The proteasome is an abundant protease that is critically important for numerous cellular pathways. Proteasomes are activated in vitro by three known classes of proteins/complexes, including Blm10/PA200. Here, we report a 3.4 A resolution crystal structure of a proteasome-Blm10 complex, which reveals that Blm10 surrounds the proteasome entry pore in the 1.2 MDa complex to form a largely closed dome that is expected to restrict access of potential substrates. This architecture and the observation that Blm10 induces a disordered proteasome gate structure challenge the assumption that Blm10 functions as an activator of proteolysis in vivo. The Blm10 C terminus binds in the same manner as seen for 11S activators and inferred for 19S/PAN activators and indicates a unified model for gate opening. We also demonstrate that Blm10 acts to maintain mitochondrial function. Consistent with the structural data, the C-terminal residues of Blm10 are needed for this activity.


Asunto(s)
Mitocondrias/enzimología , Complejo de la Endopetidasa Proteasomal/química , Proteínas de Saccharomyces cerevisiae/química , Saccharomyces cerevisiae/enzimología , Secuencia de Aminoácidos , Dominio Catalítico , Cristalografía por Rayos X , Genotipo , Modelos Moleculares , Datos de Secuencia Molecular , Mutación , Fenotipo , Complejo de la Endopetidasa Proteasomal/genética , Complejo de la Endopetidasa Proteasomal/metabolismo , Unión Proteica , Conformación Proteica , Especies Reactivas de Oxígeno/metabolismo , Saccharomyces cerevisiae/genética , Saccharomyces cerevisiae/crecimiento & desarrollo , Proteínas de Saccharomyces cerevisiae/genética , Proteínas de Saccharomyces cerevisiae/metabolismo , Relación Estructura-Actividad
15.
Nucleic Acids Res ; 44(13): 6232-41, 2016 07 27.
Artículo en Inglés | MEDLINE | ID: mdl-27141962

RESUMEN

Proliferating cell nuclear antigen (PCNA) forms a trimeric ring that encircles duplex DNA and acts as an anchor for a number of proteins involved in DNA metabolic processes. PCNA has two structurally similar domains (I and II) linked by a long loop (inter-domain connector loop, IDCL) on the outside of each monomer of the trimeric structure that makes up the DNA clamp. All proteins that bind to PCNA do so via a PCNA-interacting peptide (PIP) motif that binds near the IDCL. A small protein, called TIP, binds to PCNA and inhibits PCNA-dependent activities although it does not contain a canonical PIP motif. The X-ray crystal structure of TIP bound to PCNA reveals that TIP binds to the canonical PIP interaction site, but also extends beyond it through a helix that relocates the IDCL. TIP alters the relationship between domains I and II within the PCNA monomer such that the trimeric ring structure is broken, while the individual domains largely retain their native structure. Small angle X-ray scattering (SAXS) confirms the disruption of the PCNA trimer upon addition of the TIP protein in solution and together with the X-ray crystal data, provides a structural basis for the mechanism of PCNA inhibition by TIP.


Asunto(s)
ADN/química , Péptidos/química , Antígeno Nuclear de Célula en Proliferación/química , Conformación Proteica , Cristalografía por Rayos X , ADN/metabolismo , Conformación de Ácido Nucleico , Péptidos/metabolismo , Antígeno Nuclear de Célula en Proliferación/metabolismo , Unión Proteica , Dominios Proteicos , Thermococcus/química , Thermococcus/metabolismo
16.
J Biol Chem ; 291(21): 11003-15, 2016 May 20.
Artículo en Inglés | MEDLINE | ID: mdl-27022027

RESUMEN

Pseudomonas aeruginosa is an opportunistic bacterial pathogen that expresses type IVa pili. The pilus assembly system, which promotes surface-associated twitching motility and virulence, is composed of inner and outer membrane subcomplexes, connected by an alignment subcomplex composed of PilMNOP. PilM binds to the N terminus of PilN, and we hypothesize that this interaction causes functionally significant structural changes in PilM. To characterize this interaction, we determined the crystal structures of PilM and a PilM chimera where PilM was fused to the first 12 residues of PilN (PilM·PilN(1-12)). Structural analysis, multiangle light scattering coupled with size exclusion chromatography, and bacterial two-hybrid data revealed that PilM forms dimers mediated by the binding of a novel conserved motif in the N terminus of PilM, and binding PilN abrogates this binding interface, resulting in PilM monomerization. Structural comparison of PilM with PilM·PilN(1-12) revealed that upon PilN binding, there is a large domain closure in PilM that alters its ATP binding site. Using biolayer interferometry, we found that the association rate of PilN with PilM is higher in the presence of ATP compared with ADP. Bacterial two-hybrid data suggested the connectivity of the cytoplasmic and inner membrane components of the type IVa pilus machinery in P. aeruginosa, with PilM binding to PilB, PilT, and PilC in addition to PilN. Pull-down experiments demonstrated direct interactions of PilM with PilB and PilT. We propose a working model in which dynamic binding of PilN facilitates functionally relevant structural changes in PilM.


Asunto(s)
Proteínas Fimbrias/química , Proteínas Fimbrias/metabolismo , Pseudomonas aeruginosa/metabolismo , Adenosina Trifosfato/metabolismo , Sitios de Unión/genética , Cristalografía por Rayos X , Proteínas Fimbrias/genética , Fimbrias Bacterianas/química , Fimbrias Bacterianas/clasificación , Fimbrias Bacterianas/metabolismo , Modelos Moleculares , Complejos Multiproteicos/química , Complejos Multiproteicos/genética , Complejos Multiproteicos/metabolismo , Unión Proteica , Dominios y Motivos de Interacción de Proteínas , Multimerización de Proteína , Pseudomonas aeruginosa/genética , Pseudomonas aeruginosa/patogenicidad , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Solubilidad
17.
Proc Natl Acad Sci U S A ; 111(30): 11013-8, 2014 Jul 29.
Artículo en Inglés | MEDLINE | ID: mdl-24994902

RESUMEN

Poly-ß-1,6-N-acetyl-D-glucosamine (PNAG) is an exopolysaccharide produced by a wide variety of medically important bacteria. Polyglucosamine subunit B (PgaB) is responsible for the de-N-acetylation of PNAG, a process required for polymer export and biofilm formation. PgaB is located in the periplasm and likely bridges the inner membrane synthesis and outer membrane export machinery. Here, we present structural, functional, and molecular simulation data that suggest PgaB associates with PNAG continuously during periplasmic transport. We show that the association of PgaB's N- and C-terminal domains forms a cleft required for the binding and de-N-acetylation of PNAG. Molecular dynamics (MD) simulations of PgaB show a binding preference for N-acetylglucosamine (GlcNAc) to the N-terminal domain and glucosammonium to the C-terminal domain. Continuous ligand binding density is observed that extends around PgaB from the N-terminal domain active site to an electronegative groove on the C-terminal domain that would allow for a processive mechanism. PgaB's C-terminal domain (PgaB310-672) directly binds PNAG oligomers with dissociation constants of ∼1-3 mM, and the structures of PgaB310-672 in complex with ß-1,6-(GlcNAc)6, GlcNAc, and glucosamine reveal a unique binding mode suitable for interaction with de-N-acetylated PNAG (dPNAG). Furthermore, PgaB310-672 contains a ß-hairpin loop (ßHL) important for binding PNAG that was disordered in previous PgaB42-655 structures and is highly dynamic in the MD simulations. We propose that conformational changes in PgaB310-672 mediated by the ßHL on binding of PNAG/dPNAG play an important role in the targeting of the polymer for export and its release.


Asunto(s)
Amidohidrolasas/química , Biopelículas , Proteínas de Escherichia coli/química , Escherichia coli/fisiología , Periplasma/química , Polisacáridos Bacterianos/química , beta-Glucanos/química , Amidohidrolasas/genética , Amidohidrolasas/metabolismo , Transporte Biológico Activo/fisiología , Proteínas de Escherichia coli/genética , Proteínas de Escherichia coli/metabolismo , Simulación del Acoplamiento Molecular , Periplasma/genética , Periplasma/metabolismo , Polisacáridos Bacterianos/genética , Polisacáridos Bacterianos/metabolismo , Estructura Secundaria de Proteína , Estructura Terciaria de Proteína , beta-Glucanos/metabolismo
18.
Biochemistry ; 55(10): 1494-502, 2016 Mar 15.
Artículo en Inglés | MEDLINE | ID: mdl-26885726

RESUMEN

Noncovalent second-shell interactions are important in controlling metal-binding affinity and activity in metalloenzymes, but fine-tuning these interactions in designed metalloenzymes has not been fully explored. As a result, most designed metalloenzymes have low metal-binding affinity and activity. Here we identified three mutations in the second coordination shell of an engineered Mn(II)-binding site in cytochrome c peroxidase (called MnCcP.1, containing Glu45, Glu37, and Glu181 ligands) that mimics the native manganese peroxidase (MnP), and explored their effects on both Mn(II)-binding affinity and MnP activity. First, removing a hydrogen bond to Glu45 through Tyr36Phe mutation enhanced Mn(II)-binding affinity, as evidenced by a 2.8-fold decrease in the KM of Mn(II) oxidation. Second, introducing a salt bridge through Lys179Arg mutation improved Glu35 and Glu181 coordination to Mn(II), decreasing KM 2.6-fold. Third, eliminating a steric clash that prevented Glu37 from orienting toward Mn(II) resulted in an 8.6-fold increase in kcat/KM, arising primarily from a 3.6-fold decrease in KM, with a KM value comparable to that of the native enzyme (0.28 mM vs 0.19 mM for Pleurotus eryngii MnP PS3). We further demonstrated that while the effects of Tyr36Phe and Lys179Arg mutations are additive, because involved in secondary-shell interactions to different ligands, other combinations of mutations were antagonistic because they act on different aspects of the Mn(II) coordination at the same residues. Finally, we showed that these MnCcP variants are functional models of MnP that mimic its activity in both Mn(II) oxidation and degradation of a phenolic lignin model compound and kraft lignin. In addition to achieving KM in a designed protein that is similar to the that of native enzyme, our results offer molecular insight into the role of noncovalent interactions around metal-binding sites for improving metal binding and overall activity; such insight can be applied to rationally enhance these properties in other metalloenzymes and their models.


Asunto(s)
Citocromo-c Peroxidasa/metabolismo , Manganeso/metabolismo , Peroxidasas/metabolismo , Sitios de Unión/fisiología , Cristalización , Citocromo-c Peroxidasa/química , Activación Enzimática/fisiología , Manganeso/química , Peroxidasas/química , Estructura Secundaria de Proteína
19.
J Biol Chem ; 290(20): 12451-62, 2015 May 15.
Artículo en Inglés | MEDLINE | ID: mdl-25817996

RESUMEN

Pseudomonas aeruginosa is an opportunistic human pathogen that secretes the exopolysaccharide alginate during infection of the respiratory tract of individuals afflicted with cystic fibrosis and chronic obstructive pulmonary disease. Among the proteins required for alginate production, Alg44 has been identified as an inner membrane protein whose bis-(3',5')-cyclic dimeric guanosine monophosphate (c-di-GMP) binding activity post-translationally regulates alginate secretion. In this study, we report the 1.8 Å crystal structure of the cytoplasmic region of Alg44 in complex with dimeric self-intercalated c-di-GMP and characterize its dinucleotide-binding site using mutational analysis. The structure shows that the c-di-GMP binding region of Alg44 adopts a PilZ domain fold with a dimerization mode not previously observed for this family of proteins. Calorimetric binding analysis of residues in the c-di-GMP binding site demonstrate that mutation of Arg-17 and Arg-95 alters the binding stoichiometry between c-di-GMP and Alg44 from 2:1 to 1:1. Introduction of these mutant alleles on the P. aeruginosa chromosome show that the residues required for binding of dimeric c-di-GMP in vitro are also required for efficient alginate production in vivo. These results suggest that the dimeric form of c-di-GMP represents the biologically active signaling molecule needed for the secretion of an important virulence factor produced by P. aeruginosa.


Asunto(s)
Alginatos/química , GMP Cíclico/análogos & derivados , Multimerización de Proteína , Pseudomonas aeruginosa/química , Factores de Virulencia/química , Proteínas Bacterianas , Sitios de Unión , Cristalografía por Rayos X , GMP Cíclico/química , GMP Cíclico/genética , GMP Cíclico/metabolismo , Ácido Glucurónico/química , Ácido Glucurónico/genética , Ácido Glucurónico/metabolismo , Ácidos Hexurónicos/química , Humanos , Proteínas de la Membrana , Mutación , Estructura Cuaternaria de Proteína , Pseudomonas aeruginosa/genética , Pseudomonas aeruginosa/metabolismo , Pseudomonas aeruginosa/patogenicidad , Factores de Virulencia/genética , Factores de Virulencia/metabolismo
20.
J Biol Chem ; 290(47): 28374-28387, 2015 Nov 20.
Artículo en Inglés | MEDLINE | ID: mdl-26424791

RESUMEN

A key component of colonization, biofilm formation, and protection of the opportunistic human pathogen Pseudomonas aeruginosa is the biosynthesis of the exopolysaccharide Psl. Composed of a pentameric repeating unit of mannose, glucose, and rhamnose, the biosynthesis of Psl is proposed to occur via a Wzx/Wzy-dependent mechanism. Previous genetic studies have shown that the putative glycoside hydrolase PslG is essential for Psl biosynthesis. To understand the function of this protein, the apo-structure of the periplasmic domain of PslG (PslG(31-442)) and its complex with mannose were determined to 2.0 and 1.9 Å resolution, respectively. Despite a domain architecture and positioning of catalytic residues similar to those of other family 39 glycoside hydrolases, PslG(31-442) exhibits a unique 32-Å-long active site groove that is distinct from other structurally characterized family members. PslG formed a complex with two mannose monosaccharides in this groove, consistent with binding data obtained from intrinsic tryptophan fluorescence. PslG was able to catalyze the hydrolysis of surface-associated Psl, and this activity was abolished in a E165Q/E276Q double catalytic variant. Surprisingly, P. aeruginosa variants with these chromosomal mutations as well as a pslG deletion mutant were still capable of forming Psl biofilms. However, overexpression of PslG in a pslG deletion background impaired biofilm formation and resulted in less surface-associated Psl, suggesting that regulation of this enzyme is important during polysaccharide biosynthesis.


Asunto(s)
Biopelículas , Glicósido Hidrolasas/metabolismo , Polisacáridos/biosíntesis , Pseudomonas aeruginosa/enzimología , Secuencia de Carbohidratos , Glicósido Hidrolasas/química , Modelos Moleculares , Datos de Secuencia Molecular , Relación Estructura-Actividad , Fracciones Subcelulares/enzimología
SELECCIÓN DE REFERENCIAS
DETALLE DE LA BÚSQUEDA