Model peptide studies of Ag<sup>+</sup>binding sites from the silver resistance protein SilE

Chabert, Valentin; Hologne, Maggy; Sénèque, Olivier; Crochet, Aurélien; Walker, Olivier; Fromm, Katharina M.

doi:10.1039/c7cc02630g

Cited by 25 publications

(27 citation statements)

References 28 publications

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“…[ 126 ] For completeness and in contrast to tyrosine‐containing peptides, tri‐ and tetrapeptides with the motifs His‐X‐Met, His‐X‐Y‐Met, or Met‐X‐Y‐His can lead to light‐stable silver complexes in absence of halides with −log K values ranging from 5.3 to 6.6, depending on X and Y residues. [ 127 ] The patterns of these sequences are found in the SilE protein that is part of a silver ion efflux pump found in silver‐tolerating Gram‐negative bacteria. It does not contain any tyrosine and is used as silver ion sponge and helps to transport silver ions out of the bacterial cell.…”

Section: Mechanisms Of Microbial Synthesis Of Nanoparticlesmentioning

confidence: 99%

“…It does not contain any tyrosine and is used as silver ion sponge and helps to transport silver ions out of the bacterial cell. [ 127 ] In this case, many silver ions can be bound to the protein without the danger of light reduction occurring as not enough light absorbing and subsequently reducing amino acids are found in the sequence of SilE.…”

Section: Mechanisms Of Microbial Synthesis Of Nanoparticlesmentioning

confidence: 99%

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Metal Nanoparticle–Microbe Interactions: Synthesis and Antimicrobial Effects

Khan

Fromm

Rizvi

et al. 2020

Part & Part Syst Charact

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metal solution, reduction of the metal ions leads to the generation of metal atom clustering generating nanosized particles. A characteristic of biosynthetic NPs is their high stability as the organisms provide their own biomolecular capping agent(s). [1] While plant-based production of NPs is now considered a scientific curiosity rather than a promising biotechnology, [2] bacteriamediated NP biosynthesis offers better chances, in light of the poorly characterized microbial diversity and the complex chemistry of enzymes in metal-reducing bacteria. Two recent works focused on directed biofabrication of CdSe-nanoparticles through regulating extracellular electron transfer [3] and the biosynthesis of highly active copper NPs (CuNP) by Shewanella oneidensis. [4] However, the description of molecular mechanism(s) involved in the biosynthesis of NPs has received little attention, which is the focus of this review.The CFCF or culture supernatants (CS) of bacteria mediate the synthesis of AgNPs [5] as presented in this section. The CFCF from the family Enterobacteriaceae reduce silver ions to AgNPs ( Table 1). CFCF of Klebsiella pneumoniae, Escherichia coli, and Metal nanoparticles (NPs), chalcogenides, and carbon quantum dots can be easily synthesized from whole microorganisms (fungi and bacteria) and cell-free sterile filtered spent medium. The particle size distribution and the biosynthesis time can be somewhat controlled through the biomass/metal solution ratio. The biosynthetic mechanism can be explained through the ionreduction theory and UV photoconversion theory. Formation of biosynthetic NPs is part of the detoxification strategy employed by microorganisms, either in planktonic or biofilm form, to reduce the chemical toxicity of metal ions. In fact, most reports on NP biosynthesis show extracellular metal ion reduction. This is important for environmental and industrial applications, particularly in biofilms, as it allows in principle high biosynthetic rates. The antimicrobial and antifungal effect on biosynthetic NPs can be explained in terms of reactive oxygen species and can be enhanced by the capping agents attached to the NP during the biosynthesis process. Industrial applications of NP biosynthesis are still lagging, due to the difficulty of controlling NP size and low titer. Further, the environmental assessment of biosynthetic NPs has not yet been carried out. It is expected that further advancements in biosynthetic NP research will lead to applications, particularly in environmental biotechnology.

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Section: Mechanisms Of Microbial Synthesis Of Nanoparticlesmentioning

confidence: 99%

Section: Mechanisms Of Microbial Synthesis Of Nanoparticlesmentioning

confidence: 99%

Metal Nanoparticle–Microbe Interactions: Synthesis and Antimicrobial Effects

Khan

Fromm

Rizvi

et al. 2020

Part & Part Syst Charact

Self Cite

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“…In addition to the electrostatic interactions, Ag + ions bind to cytosine-cytosine (C-C) mismatching base pair selectively [48][49][50] and possibly result in chain-slippage [51] . Second, it has been reported that Ag + ions interact with thiol groups in proteins (e.g., cysteine) and peptides containing motifs of HXnM or MXnH (H -histidine, M -methionine, X -other amino acids) [52][53][54] . On the other hand, the H-NS protein does not contain any HXnM or MXnH motifs but has a single cysteine in the dimerization domain, instead of the linker and DNA-binding domain [36,55] ; therefore, the interaction of H-NS and Ag + ions is expected to minimally affect the binding of the protein on DNA.…”

Section: Dehybridization Of Bent Duplex Dna Induced By Ag + Ionsmentioning

confidence: 99%

Faster diffusive dynamics of histone-like nucleoid structuring proteins in live bacteria caused by silver ions

Sadoon

Khadka

Freeland

et al. 2019

Preprint

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The antimicrobial activity and mechanism of silver ions (Ag + ) have gained broad attention in recent years. However, dynamic studies are rare in this field. Here, we report our measurement of the effects of Ag + ions on the dynamics of histone-like nucleoid structuring (H-NS) proteins in live bacteria using single-particle tracking photoactivated localization microscopy (sptPALM). It was found that treating the bacteria with Ag + ions led to faster diffusive dynamics of H-NS proteins. Several techniques were used to understand the mechanism of the observed faster dynamics. Electrophoretic mobility shift assay on purified H-NS proteins indicated that Ag + ions weaken the binding between H-NS proteins and DNA. Isothermal titration calorimetry confirmed that DNA and Ag + ions interact directly. Our recently developed sensing method based on bent DNA suggested that Ag + ions caused dehybridization of double-stranded DNA (i.e., dissociation into single strands). These evidences led us to a plausible mechanism for the observed faster dynamics of H-NS proteins in live bacteria when subjected to Ag + ions: Ag + -induced DNA dehybridization weakens the binding between H-NS proteins and DNA. This work highlighted the importance of dynamic study of single proteins in the live cells for understanding the functions of antimicrobial agents to the bacteria.

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“…As proteins, DNA has been used for similar purposes and DNA origami finds now interesting applications as scaffold for nanofabrication . Compared to DNA, proteins are more versatile thanks to their multiple anchoring sites, e.g., amino acids such as lysine, glutamate, and cysteine, ready for functionalization by means of amine, carboxyl, or thiol‐reactive dyes, cross‐linkers, and other biomolecules . Note that in many proteins the carboxyl and amine‐terminal residues lie along the surface of rim and cavity thus providing two very independent surfaces for biofunctionalization .…”

Section: Introductionmentioning

confidence: 99%

“…[33][34][35][36][37][38][39] Compared to DNA, proteins are more versatile thanks to their multiple anchoring sites, e.g., amino acids such as lysine, glutamate, and cysteine, ready for functionalization by means of amine, carboxyl, or thiol-reactive dyes, cross-linkers, and other biomolecules. [40,41] Note that in many proteins the carboxyl and amine-terminal residues lie along the surface of rim and cavity thus providing two very independent surfaces for biofunctionalization. [42] Moreover, protein data banks provide a large variety of shapes, [43] size, [26] surfaces, [44] and chemical properties, which can be used to achieve nanostructures with the desired morphology and features.…”

Section: Introductionmentioning

confidence: 99%

Bio‐Assisted Tailored Synthesis of Plasmonic Silver Nanorings and Site‐Selective Deposition on Graphene Arrays

Giovannini

Ardini

Maccaferri

et al. 2019

Advanced Optical Materials

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The spontaneous interaction between noble metals and biological scaffolds enables simple and cost‐effective synthesis of nanomaterials with unique features. Here, plasmonic silver nanorings are synthesized on a ring‐like protein, i.e., a peroxiredoxin (PRX), and used to assemble large arrays of functional nanostructures. The PRX drives the seeding growth of metal silver under wet reducing conditions, yielding nanorings with outer and inner diameters down to 28 and 3 nm, respectively. The obtained hybrid nanostructures are selectively deposited onto a solid‐state 2D membrane made of graphene in order to prepare plasmonic nanopores. In particular, the interaction between the graphene and the PRX allows for the simple preparation of ordered arrays of plasmonic nanorings on a 2D‐material membrane. This fabrication process can be finalized by drilling a nanometer scale pore in the middle of the ring. Fluorescence spectroscopic measurements in combination with numerical simulations demonstrate the plasmonic effects induced in the metallic nanoring cavity. The prepared nanopores represent one of the first examples of hybrid plasmonic nanopore structures integrated on a 2D‐material membrane. The diameter of the nanopore and the atomically thick substrate make this proof‐of‐concept approach particularly interesting for nanopore‐based technologies and applications such as next‐generation sequencing and single‐molecule detection.

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Model peptide studies of Ag⁺binding sites from the silver resistance protein SilE

Cited by 25 publications

References 28 publications

Metal Nanoparticle–Microbe Interactions: Synthesis and Antimicrobial Effects

Metal Nanoparticle–Microbe Interactions: Synthesis and Antimicrobial Effects

Faster diffusive dynamics of histone-like nucleoid structuring proteins in live bacteria caused by silver ions

Bio‐Assisted Tailored Synthesis of Plasmonic Silver Nanorings and Site‐Selective Deposition on Graphene Arrays

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Model peptide studies of Ag+binding sites from the silver resistance protein SilE

Cited by 25 publications

References 28 publications

Metal Nanoparticle–Microbe Interactions: Synthesis and Antimicrobial Effects

Metal Nanoparticle–Microbe Interactions: Synthesis and Antimicrobial Effects

Faster diffusive dynamics of histone-like nucleoid structuring proteins in live bacteria caused by silver ions

Bio‐Assisted Tailored Synthesis of Plasmonic Silver Nanorings and Site‐Selective Deposition on Graphene Arrays

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Model peptide studies of Ag⁺binding sites from the silver resistance protein SilE