Visualizing Biological Copper Storage: The Importance of Thiolate‐Coordinated Tetranuclear Clusters

Bacteria possess cytosolic proteins (Csp3s) capable of binding large quantities of copper and preventing toxicity. Crystal structures of a Csp3 plus increasing amounts of Cu^I provide atomic‐level information about how a storage protein loads with metal ions. Many more sites are occupied than Cu^I equiv added, with binding by twelve central sites dominating. These can form [Cu₄(S‐Cys)₄] intermediates leading to [Cu₄(S‐Cys)₅]⁻, [Cu₄(S‐Cys)₆]²⁻, and [Cu₄(S‐Cys)₅(O‐Asn)]⁻ clusters. Construction of the five Cu^I sites at the opening of the bundle lags behind the main core, and the two least accessible sites at the opposite end of the bundle are occupied last. Facile Cu^I cluster formation, reminiscent of that for inorganic complexes with organothiolate ligands, is largely avoided in biology but is used by proteins that store copper in the cytosol of prokaryotes and eukaryotes, where this reactivity is also key to toxicity.     

Recognition‐then‐Reaction Enables Site‐Selective Bioconjugation to Proteins on Live‐Cell Surfaces

Site‐selective protein modification is a key step in facilitating protein functionalization and manipulation. To accomplish this, genetically engineered proteins were previously required, but the procedure was laborious, complex, and technically challenging. Herein we report the development of aptamer‐based recognition‐then‐reaction to guide site‐selective protein/DNA conjugation in a single step with outstanding selectivity and efficiency. As models, several proteins, including human thrombin, PDGF‐BB, Avidin, and His‐tagged recombinant protein, were studied, and the results showed excellent selectivity under mild reaction conditions. Taking advantage of aptamers as recognition elements with extraordinary selectivity and affinity, this simple preparation method can tag a protein in a complex milieu. Thus, with the aptamer obtained from cell‐SELEX, real‐time modification of live‐cell membrane proteins can be achieved in one step without any pre‐treatment.     

Peptide‐Based Carbohydrate Receptors

A broad spectrum of physiological processes is mediated by highly specific noncovalent interactions of carbohydrates and proteins. In a recent communication we identified several cyclic hexapeptides in a dynamic combinatorial library that interact selectively with carbohydrates with high binding constants in water. Herein, we report a detailed investigation of the noncovalent interaction of two cyclic hexapeptides (Cys‐His‐Cys (which we call HisHis) and Cys‐Tyr‐Cys (which we call TyrTyr)) with a selection of monosaccharides and disaccharides in aqueous solution. The parallel and antiparallel isomers of HisHis or TyrTyr were synthesized separately, and their interaction with monosaccharides and disaccharides in aqueous solution was studied by isothermal titration calorimetry, NMR spectroscopic titrations, and circular dichroism spectroscopy. From these measurements, we identified particularly stable complexes (K_a>1000 M ^?1) of the parallel isomer of HisHis with N‐acetylneuraminic acid and with methyl‐α‐D ‐galactopyranoside as well as of both isomers of TyrTyr with trehalose. To gain further insight into the structure of the peptide–carbohydrate complexes, structure prediction was performed using quantum chemical methods. The calculations confirm the selectivity observed in the experiments and indicate the formation of multiple intermolecular hydrogen bonds in the most stable complexes.     

Force fields including charge transfer and local polarization effects: Application to proteins containing multi/heavy metal ions

The question whether molecular dynamics (MD) simulations can yield reliable structural and dynamical properties of metalloproteins depend on the accuracy of the force field, i.e., the potential energy function (PEF) and associated parameters modeling the interactions of the metal ion of interest with water and protein ligands. Previously, we had developed a CTPOL PEF for protein simulations of Zn(2+) bound to Cys(-) and/or His(0) that includes charge transfer and local polarization effects as well as metal van der Waals parameters that reproduce the structural and thermodynamical properties of 22 dications. Here, we evaluate if the CTPOL PEF and the new metal parameters (referred to as the CTPOLa force field) can be applied to proteins containing polynuclear metal-binding sites and heavy toxic metal ions, using the CdZn(2)-Cys(9) beta-domain of rat liver metallothionein-2 and the Hg(2+)-bound 18-residue peptide from MerP as test systems. Using the CTPOLa force field, simulations of the beta-domain of rat liver metallothionein-2 totaling 19 ns could preserve the experimentally observed CdZn(2)-Cys(9) complex geometry and overall protein structure, whereas simulations neglecting charge transfer and local polarization effects could not. However, the CTPOLa force field cannot reproduce the experimentally observed linear bicoordination of Hg(2+) in the MerP peptide without adding an angular restraint to the CTPOL PEF to correct the angle distribution about Hg(2+). Thus, the force fields presented herein for the group IIB metal ions can be applied to simulation studies of proteins containing polynuclear metal-binding sites and heavy metal ions in aqueous solution. PEF neglecting charge transfer and local polarization effects in conjunction with vdW parameters adjusted to reproduce the structural and thermodynamical properties of only the metal ion in question could not yield an accurate representation of the metal-binding site and overall protein structure.     

On‐Chip Tailorability of Capacitive Gas Sensors Integrated with Metal–Organic Framework Films

Gas sensing technologies for smart cities require miniaturization, cost‐effectiveness, low power consumption, and outstanding sensitivity and selectivity. On‐chip, tailorable capacitive sensors integrated with metal–organic framework (MOF) films are presented, in which abundant coordinatively unsaturated metal sites are available for gas detection. The in situ growth of homogeneous Mg‐MOF‐74 films is realized with an appropriate metal‐to‐ligand ratio. The resultant sensors exhibit selective detection for benzene vapor and carbon dioxide (CO₂) at room temperature. Postsynthetic modification of Mg‐MOF‐74 films with ethylenediamine decreases sensitivity toward benzene but increases selectivity to CO₂. The reduced porosity and blocked open metal sites caused by amine coordination account for a deterioration in the sensing performance for benzene (by ca. 60 %). The enhanced sensitivity for CO₂ (by ca. 25 %) stems from a tailored amine–CO₂ interaction. This study demonstrates the feasibility of tuning gas sensing properties by adjusting MOF–analyte interactions, thereby offering new perspectives for the development of MOF‐based sensors.     

Relaxometric Study of Copper [15]Metallacrown‐5 Gadolinium Complexes Derived from α‐Aminohydroxamic Acids

Proton nuclear magnetic relaxation dispersion (NMRD) profiles were recorded between 0.24 mT and 1.4 T for lanthanum(III )‐ and gadolinium(III )‐containing [15]metallacrown‐5 complexes derived from α‐aminohydroxamic acids and with copper(II ) as the ring metal. The influence of the different R‐groups on the proton relaxivity was investigated, and a linear relationship between the relaxivity and the molecular mass of the metallacrown complex was found. The selectivity of the metallacrown complexes was tested by transmetalation experiments with zinc(II ) ions. The crystal structure of the copper [15]metallacrown‐5 gadolinium complex with glycine hydroximate ligands is reported.     

Structural Basis for Copper–Oxygen Mediated C−H Bond Activation by the Formylglycine‐Generating Enzyme

The formylglycine‐generating enzyme (FGE) is a unique copper protein that catalyzes oxygen‐dependent C−H activation. We describe 1.66 Å‐ and 1.28 Å‐resolution crystal structures of FGE from Thermomonospora curvata in complex with either Ag^I or Cd^II providing definitive evidence for a high‐affinity metal‐binding site in this enzyme. The structures reveal a bis‐cysteine linear coordination of the monovalent metal, and tetrahedral coordination of the bivalent metal. Similar coordination changes may occur in the active enzyme as a result of Cu^I/II redox cycling. Complexation of copper atoms by two cysteine residues is common among copper‐trafficking proteins, but is unprecedented for redox‐active copper enzymes or synthetic copper catalysts.     

Metal‐Mediated Functionalization of Natural Peptides and Proteins: Panning for Bioconjugation Gold

Selective modification of natural proteins is a daunting methodological challenge and a stringent test of selectivity and reaction scope. There is a continued need for new reactivity and new selectivity concepts. Transition metals exhibit a wealth of unique reactivity that is orthogonal to biological reactions and processes. As such, metal‐based methods play an increasingly important role in bioconjugation. This Review examines metal‐based methods as well as their reactivity and selectivity for the functionalization of natural proteins and peptides.     

Copper‐Modified Covalent Triazine Frameworks as Non‐Noble‐Metal Electrocatalysts for Oxygen Reduction

The electrochemical oxygen reduction reaction (ORR) is an important cathode reaction of various types of fuel cells. The development of electrocatalysts composed only of abundant elements is a key goal because currently only platinum is a suitable catalyst for ORR. Herein, we synthesized copper‐modified covalent triazine frameworks (CTF) hybridized with carbon nanoparticles (Cu‐CTF/CPs) as efficient electrocatalysts for the ORR in neutral solutions. The ORR onset potential of the synthesized Cu‐CTF/CP was 810 mV versus the reversible hydrogen electrode (RHE; pH 7), the highest reported value at neutral pH for synthetic Cu‐based electrocatalysts. Cu‐CTF/CP also displayed higher stability than a Cu‐based molecular complex at neutral pH during the ORR, a property that was likely as a result of the covalently cross‐linked structure of CTF. This work may provide a new platform for the synthesis of durable non‐noble‐metal electrocatalysts for various target reactions.     

Histidine‐Rich Oligopeptides To Lessen Copper‐Mediated Amyloid‐β Toxicity

Brain copper imbalance plays an important role in amyloid‐β aggregation, tau hyperphosphorylation, and neurotoxicity observed in Alzheimer's disease (AD). Therefore, the administration of biocompatible metal‐binding agents may offer a potential therapeutic solution to target mislocalized copper ions and restore metallostasis. Histidine‐containing peptides and proteins are excellent metal binders and are found in many natural systems. The design of short peptides showing optimal binding properties represents a promising approach to capture and redistribute mislocalized metal ions, mainly due to their biocompatibility, ease of synthesis, and the possibility of fine‐tuning their metal‐binding affinities in order to suppress unwanted competitive binding with copper‐containing proteins. In the present study, three peptides, namely HWH , HK^CH , and HAH , have been designed with the objective of reducing copper toxicity in AD. These tripeptides form highly stable albumin‐like complexes, showing higher affinity for Cu^II than that of Aβ(1‐40). Furthermore, HWH , HK^CH , and HAH act as very efficient inhibitors of copper‐mediated reactive oxygen species (ROS) generation and prevent the copper‐induced overproduction of toxic oligomers in the initial steps of amyloid aggregation in the presence of Cu^II ions. These tripeptides, and more generally small peptides including the sequence His‐Xaa‐His at the N‐terminus, may therefore be considered as promising motifs for the future development of new and efficient anti‐Alzheimer drugs.     

A Novel L‐Cysteine Electrochemical Sensor Using Sulfonated Graphene‐poly(3,4‐Ethylenedioxythiophene) Composite Film Decorated with Gold Nanoparticles

By exploiting the electrostatic interaction between positively charged 3,4‐ethylenedioxythiophene cation radicals and negatively charged sulfonated graphene (SG) sheets, we prepared a poly(3,4‐ethylenedioxythiophene)‐sulfonated graphene (SG‐PEDOT) composite film by a one‐step electrochemical process. The composite was further decorated with gold nanoparticles (AuNPs) and employed as an electrode material for the detection of L ‐cysteine (Cys). The SG‐PEDOT composite film is shown to provide a rough surface for the electrodeposition of AuNPs and to improve substrate accessibility and interaction with Cys. Moreover, the AuNPs‐decorated composite exhibits better electrocatalytic performance than that of a SG‐PEDOT composite only. Under optimum experimental conditions, the amperometric current of the sensor is linearly related to the concentration of Cys in the 0.1 to 382 µM range, and the detection limit is 0.02 µM (at S/N=3). The modified electrode displays favorable selectivity, good stability and high reproducibility. The method was successfully applied to the detection of Cys in spiked human urine.     

A Reusable DNA Single‐Walled Carbon‐Nanotube‐Based Fluorescent Sensor for Highly Sensitive and Selective Detection of Ag+ and Cysteine in Aqueous Solutions

Here we report a reusable DNA single‐walled carbon nanotube (SWNT)‐based fluorescent sensor for highly sensitive and selective detection of Ag⁺ and cysteine (Cys) in aqueous solution. SWNTs can effectively quench the fluorescence of dye‐labeled single‐stranded DNA due to their strong π–π stacking interactions. However, upon incubation with Ag⁺, Ag⁺ can induce stable duplex formation mediated by C–Ag⁺–C (C=cytosine) coordination chemistry, which has been further confirmed by DNA melting studies. This weakens the interactions between DNA and SWNTs, and thus activates the sensor fluorescence. On the other hand, because Cys is a strong Ag⁺ binder, it can remove Ag⁺ from C–Ag⁺–C base pairs and deactivates the sensor fluorescence by rewrapping the dye‐labeled oligonucleotides around the SWNT. In this way, the fluorescence signal‐on and signal‐off of a DNA/SWNT sensor can be used to detect aqueous Ag⁺ and Cys, respectively. This sensing platform exhibits high sensitivity and selectivity toward Ag⁺ and Cys versus other metal ions and the other 19 natural amino acids, with a limit of detection of 1 nM for Ag⁺ and 9.5 nM for Cys. Based on these results, we have constructed a reusable fluorescent sensor by using the covalent‐linked SWNT–DNA conjugates according to the same sensing mechanism. There is no report on the use of SWNT–DNA assays for the detection of Ag⁺ and Cys. This assay is simple, effective, and reusable, and can in principle be used to detect other metal ions by substituting C–C base pairs with other native or artificial bases that selectively bind to other metal ions.     

Bifunctional Cyclam‐Based Ligands with Phosphorus Acid Pendant Moieties for Radiocopper Separation: Thermodynamic and Kinetic Studies

Two macrocyclic ligands based on cyclam with trans‐disposed N‐methyl and N‐(4‐aminobenzyl) substituents as well as two methylphosphinic (H₂ L1 ) or methylphosphonic (H₄ L2 ) acid pendant arms were synthesised and investigated in solution. The ligands form stable complexes with transition metal ions. Both ligands show high thermodynamic selectivity for divalent copper over nickel(II) and zinc(II)—K(CuL) is larger than K(Ni/ZnL) by about seven orders of magnitude. Complexation is significantly faster for the phosphonate ligand H₄ L2 , probably due to the stronger coordination ability of the more basic phosphonate groups, which efficiently bind the metal ion in an “out‐of‐cage” complex and thus accelerate its “in‐cage” binding. The rate of Cu^II complexation by the phosphinate ligand H₂ L1 is comparable to that of cyclam itself and its derivatives with non‐coordinating substituents. Acid‐assisted decomplexation of the copper(II) complexes is relatively fast (τ_1/2=44 and 42 s in 1 M aq. HClO₄ at 25 °C for H₂ L1 and H₄ L2 , respectively). This combination of properties is convenient for selective copper removal/purification. Thus, the title ligands were employed in the preparation of ion‐selective resins for radiocopper(II) separation. Glycidyl methacrylate copolymer beads were modified with the ligands through a diazotisation reaction. The separation ability of the modified polymers was tested with cold copper(II) and non‐carrier‐added ⁶⁴Cu in the presence of a large excess of both nickel(II) and zinc(II). The experiments exhibited high overall separation efficiency leading to 60–70 % recovery of radiocopper with high selectivity over the other metal ions, which were originally present in 900‐fold molar excess. The results showed that chelating resins with properly tuned selectivity of their complexing moieties can be employed for radiocopper separation.     

Easy‐to‐Attach/Detach Solubilizing‐Tag‐Aided Chemical Synthesis of an Aggregative Capsid Protein

A solubilizing Trt‐K₁₀ tag was developed for the effective chemical preparation of peptides/proteins with low solubility. The Trt‐K₁₀ tag comprises a hydrophilic oligo‐Lys sequence and a trityl anchor, and can be selectively introduced to a side chain thiol of Cys of deprotected peptides/proteins with a trityl alcohol‐type introducing reagent Trt(OH)‐K₁₀ under acidic conditions. Significantly, the ligation product in the reaction mixture of a thiol‐additive‐free native chemical ligation can be modified directly in a one‐pot manner to facilitate the isolation of the product by high‐performance liquid chromatography. Finally, the Trt‐K₁₀ tag can be readily removed with a standard trifluoroacetic acid cocktail. Using this easy‐to‐attach/detach tag‐aided method, a hepatitis B virus capsid protein that is usually difficult to handle was synthesized successfully.     

Chemical cross‐linking with a diazirine photoactivatable cross‐linker investigated by MALDI‐ and ESI‐MS/MS

Crystallography and nuclear magnetic resonance are well‐established methods to study protein tertiary structure and interactions. Despite their usefulness, such methods are not applicable to many protein systems. Chemical cross‐linking of proteins coupled with mass spectrometry allows low‐resolution characterization of proteins and protein complexes based on measuring distance constraints from cross‐links. In this work, we have investigated cross‐linking by means of a heterobifunctional cross‐linker containing a traditional N‐hydroxysuccinimide (NHS) ester and a UV photoactivatable diazirine group. Activation of the diazirine group yields a highly reactive carbene species, with potential to increase the number of cross‐links compared with homobifunctional, NHS‐based cross‐linkers. Cross‐linking reactions were performed on model systems such as synthetic peptides and equine myoglobin. After reduction of the disulfide bond, the formation of intra‐ and intermolecular cross‐links was identified and the peptides modified with both NHS and diazirine moieties characterized. Fragmentation of these modified peptides reveals the presence of a marker ion for intramolecular cross‐links, which facilitates identification. Copyright © 2010 John Wiley & Sons, Ltd.     

A Novel Electrochemical Sensor Based on Copper‐based Metal‐Organic Framework for the Determination of Dopamine

A glassy carbon electrode (GCE) modified with a copper‐based metal‐organic framework (MOF) [HKUST‐1, HKUST‐1 = Cu₃(BTC)₂ (BTC = 1,3,5‐benzenetricarboxylicacid)] was developed as a highly sensitive and simple electrochemical sensor for the determination of dopamine (DA). The MOF was prepared by a hydrothermal process, and the morphology and crystal phase of the MOF were characterized by scanning electron microscopy (SEM) and X‐ray diffraction (XRD), respectively. Meanwhile, the electrochemical performance was investigated using cyclic voltammetry (CV), differential pulse voltammetry (DPV), and electrochemical impedance spectroscopy (EIS). Under optimized conditions, the modified electrode showed excellent electrocatalytic activity and high selectivity toward DA. The linear response range was from 5.0 × 10⁻⁷ to 1.0 × 10⁻⁴ M and the detection limit was as low as 1.5 × 10⁻⁷ M. Moreover, the electrochemical sensor was used to detect DA in real samples with excellent results. MOF‐based sensors hold great promise for routine sensing applications in the field of electrochemical sensing.     

Target Self‐Enhanced Selectivity in Metal‐Specific DNAzymes

Highly selective recognition of metal ions by rational ligand design is challenging, and simple metal binding by biological ligands is often obscured by nonspecific interactions. In this work, binding‐triggered catalysis is used and metal selectivity is greatly increased by increasing the number of metal ions involved, as exemplified in a series of in vitro selected RNA‐cleaving DNAzymes. The cleavage junction is modified with a glycyl–histidine‐functionalized tertiary amine moiety to provide multiple potential metal coordination sites. DNAzymes that bind 1, 2, and 3 Zn²⁺ ions, increased their selectivity for Zn²⁺ over Co²⁺ ions from approximately 20‐, 1000‐, to 5000‐fold, respectively. This study offers important insights into metal recognition by combining rational ligand design and combinatorial selection, and it provides a set of new DNAzymes with excellent selectivity for Zn²⁺ ions.     

Luminescence Enhancement based Sensing of L‐Cysteine by Doped Quantum Dots

The interaction of a presynthesized orange emitting Mn²⁺‐doped ZnS quantum dots (QDs) with L‐Cysteine (L?Cys) led to enhance emission intensity (at 596 nm) and quantum yield (QY). Importantly, the Mn²⁺‐doped ZnS QDs exhibited high sensitivity towards L?Cys, with a limit of detection of 0.4±0.02 μM (in the linear range of 3.3–13.3 μM) and high selectivity in presence of interfering amino acids and metal ions. The association constant of L?Cys was determined to be 0.36×10⁵ M^?1. The amplified passivation of the surface of Mn²⁺‐doped ZnS QDs following the incorporation and binding of L?Cys is accounted for the enhancement in their luminescence features. Moreover, the luminescence enhancement‐based detection will bring newer dimension towards sensing application.     

Acyl‐Chain Elongation Drives Ketosynthase Substrate Selectivity in trans‐Acyltransferase Polyketide Synthases

Type I modular polyketide synthases (PKSs), which are responsible for the biosynthesis of many biologically active agents, possess a ketosynthase (KS) domain within each module to catalyze chain elongation. Acylation of the KS active site Cys residue is followed by transfer to malonyl‐ACP to yield an extended β‐ketoacyl chain (ACP=acyl carrier protein). To date, the precise contribution of KS selectivity in controlling product fidelity has been unclear. Six KS domains from trans‐acyltransferase (trans‐AT) PKSs were subjected to a mass spectrometry based elongation assay, and higher substrate selectivity was identified for the elongating step than in preceding acylation. A close correspondence between the observed KS selectivity and that predicted by phylogenetic analysis was seen. These findings provide insights into the mechanism of KS selectivity in this important group of PKSs, can serve as guidance for engineering, and show that targeted mutagenesis can be used to expand the repertoire of acceptable substrates.