Manipulating Magnetoinductive Coupling with Graphene-Based Plasmonic Metamaterials in THz Region

Coupling between physical modes can trigger some new physical phenomena such as frequency shift, new mode, and Rabi splitting. Resonant modes in graphene-based metamaterials provide a new platform for the research of coupling. In this work, we demonstrate that the plasmonic coupling of split ring resonator (SRR) dimer in graphene-based metamaterials can be easily manipulated. This magnetoinductive coupling can switch on/off the dark modes easily, which is usually done by symmetry-breaking structure previously. Furthermore, the dark mode can also be activated by Fermi energy as well as carrier concentration changing with either physical or chemical methods conveniently. In addition, different graphene-based SRR dimer configurations present different coupling strengths, which benefits the designing and optimizing of graphene-based metamaterials. The demonstration could enhance the versatility of both coupling studies in terahertz (THz) region and graphene-based metamaterials for THz devices.     

Geometry for Maximizing Localized Surface Plasmon Resonance of Au Nanorings with Random Orientations

The reduction of average extinction cross section of a localized surface plasmon (LSP) resonance mode under the random orientation condition of Au nanoring (NRI) distribution is first numerically demonstrated. The reduction range depends on the geometry symmetry property of the electron oscillation axis in the LSP resonance mode. Then, by increasing the ring height, an optimized Au NRI geometry is designed to make the resonance wavelengths of its cross-ring dipole mode and axial dipole mode the same. In such an Au NRI, a few higher-order axial LSP modes are discovered. Also, under the condition of random orientation distribution, the ranges of extinction, scattering, and absorption cross section reductions from the corresponding maximum levels of optimized excitations are significantly decreased, when compared with the counterparts of the Au NRIs of a smaller ring height.     

Low frequency dynamics of chymotrypsin by neutron spectroscopy

The low frequency vibrational modes of enzymes have large amplitudes of vibration which should be related to conformational changes that occur during enzyme action. In the present paper we present inelastic neutron scattering measurements for -chymotrypsin that show a peak in the low frequency spectrum. This peak is well defined at 77 K. Gaussian fits yield values of 0.93±0.05, 0.86±0.04, 0.81±0.05, and 0.87±0.06 THz for the peak position at wave vector transfers (Q) of 1.00, 1.40, 1.85, and 3.00 Å^-1, respectively. The full widths at half maximum are all greater than the resolution (0.2 THz) by at least a factor of two. At 298 K a weak peak at about 0.6 THz was observed for Q values of 1.0, 1.4 and 1.85 Å^-1. The data are interpreted in terms of the allowed oscillations of a large globular protein treated as an elastic sphere. Assuming a Raman active oscillation at 0.9 THz it is shown that a peak in the neutron scattering response at 0.6 THz may arise from a rotational shear mode of the chymotrypsin molecule.     

The position of cytochrome b(559) relative to Q(A) in photosystem II studied by electron-electron double resonance (ELDOR)

The electron-electron double resonance (ELDOR) method was applied to measure the dipole interaction between cytochrome (Cyt) b(+)(559) and the primary acceptor quinone (Q(-)(A)), observed at g=2.0045 with the peak to peak width of about 9 G, in Photosystem II (PS II) in which the non-heme Fe(2+) was substituted by Zn(2+). The paramagnetic centers of Cyt b(+)(559)Y(D)Q(-)(A) were trapped by illumination at 273 K for 8 min, followed by dark adaptation for 3 min and freezing into 77 K. The distance between the pair Cyt b(+)(559)-Q(-)(A) was estimated from the dipole interaction constant fitted to the observed ELDOR time profile to be 40+/-1 A. In the membrane oriented PS II particles the angle between the vector from Q(A) to Cyt b(559) and the membrane normal was determined to be 80+/-5 degrees. The position of Cyt b(559) relative to Q(A) suggests that the heme plane is located on the stromal side of the thylakoid membrane. ELDOR was not observed for Cyt b(+)(559) Y(D) spin pair, suggesting the distance between them is more than 50 A.     

Conformational studies on the hypothalamic thyrotropin releasing factor and related compounds by 1-H nuclear magnetic resonance spectroscopy

Proton magnetic resonance studies at 220 MHz were carried out on the hypothalamic thyrotropin releasing factor (TRF) and a variety of synthetic analogs designed to yield specific information about side chain–side chain and side chain–backbone interactions. The results show that the very low field resonance position of one of the carboxamide protons observed for TRF dissolved in dimethylsulfoxide is neither caused by a seven-membered nor by a ten-membered hydrogen bonded ring, but rather is due to a short range interaction between the unprotonated histidyl side chain and the carboxamide residue. A systematic study of the preferred histidyl side chain conformation in various TRF analogs is in good agreement with this interpretation. It was demonstrated that this interaction is not strong enough to cause significant changes in the preferred back bone conformation of the hormone. The possibilities for typical dipole–dipole interaction are discussed. No such interaction has been detected in TRF dissolved in water. We conclude that the tertiary structure of TRF in polar solvents is determined primarily by the steric characteristics of the bulky side chains which maintain the molecule preferentially in an extended conformation.     

Hybrid Toroidal Resonance Response in Planar Core-Shell THz Metasurfaces

Toroidal resonance of planar structure is feasible and interesting for many appealing applications. We numerically and experimentally investigated the toroidal resonances in a planar metamaterial comprising core-shell structures and its constituent core and shell components at THz frequencies. The investigated structure demonstrated sharp toroidal and hybrid toroidal resonance modes in 0.2–0.3 THz range. Our analysis showed that these modes could be explained by the interaction of resonance toroidal modes of the shell and core components. The response of the investigated planar core-shell toroidal metasurface is notably geometry dependent and can be easily tuned by tailoring the device geometry. Presented work can be used for advanced THz photonics applications, including precise bio-sensing, narrow-band filters, fast-switching, and modulation.

     

Terahertz Dipole Nanoantenna Arrays: Resonance Characteristics

Resonant dipole nanoantennas promise to considerably improve the capabilities of terahertz spectroscopy, offering the possibility of increasing its sensitivity through local field enhancement, while in principle allowing unprecedented spatial resolutions, well below the diffraction limit. Here, we investigate the resonance properties of ordered arrays of terahertz dipole nanoantennas, both experimentally and through numerical simulations. We demonstrate the tunability of this type of structures, in a range (～1–2 THz) that is particularly interesting and accessible by means of standard zinc telluride sources. We additionally study the near-field resonance properties of the arrays, finding that the resonance shift observed between near-field and far-field spectra is predominantly ascribable to ohmic damping.     

Lysine 5 and phenylalanine 9 of the factor IX omega-loop interact with phosphatidylserine in a membrane-mimetic environment

The binding of factor IX to cell membranes requires a structured N-terminal omega-loop conformation that exposes hydrophobic residues for a highly regulated interaction with a phospholipid. We hypothesized that a peptide comprised of amino acids Gly4-Gln11 of factor IX (fIX(G4)(-)(Q11)) and constrained by an engineered disulfide bond would assume the native factor IX omega-loop conformation in the absence of Ca(2+). The small size and freedom from aggregation-inducing calcium interactions would make fIX(G4)(-)(Q11) suitable for structural studies for eliciting details about phospholipid interactions. fIX(G4)(-)(Q11) competes with factor IXa for binding sites on phosphatidylserine-containing membranes with a K(i) of 11 microM and inhibits the activation of factor X by the factor VIIIa-IXa complex with a K(i) of 285 microM. The NMR structure of fIX(G4)(-)(Q11) reveals an omega-loop backbone fold and side chain orientation similar to those found in the calcium-bound factor IX Gla domain, FIX(1-47)-Ca(2+). Dicaproylphosphatidylserine (C(6)PS) induces HN, Halpha backbone, and Hbeta chemical shift perturbations at residues Lys5, Leu6, Phe9, and Val10 of fIX(G4)(-)(Q11), while selectively protecting the NHzeta side chain resonance of Lys5 from solvent exchange. NOEs between the aromatic ring protons of Phe9 and specific acyl chain protons of C(6)PS indicate that these phosphatidylserine protons reside 3-6 A from Phe9. Stabilization of the phosphoserine headgroup and glycerol backbone of C(6)PS identifies that phosphatidylserine is in a protected environment that is spatially juxtaposed with fIX(G4)(-)(Q11). Together, these data demonstrate that Lys5, Leu6, Phe9, and Val10 preferentially interact with C(6)PS and allow us to correlate known hemophilia B mutations of factor IX at Lys5 or Phe9 with impaired phosphatidylserine interaction.     

Chemical-shift-perturbation mapping of the phosphotransfer and catalytic domain interaction in the histidine autokinase CheA from Thermotoga maritima

Regulating the activity of the histidine autokinase CheA is a central step in bacterial chemotaxis. The CheA autophosphorylation reaction minimally involves two CheA domains, denoted P1 and P4. The kinase domain (P4) binds adenosine triphosphate (ATP) and orients the gamma phosphate for phosphotransfer to a reactive histidine on the phosphoacceptor domain (P1). Three-dimensional triple-resonance experiments allowed sequential assignments of backbone nuclei from P1 and P4 domains as well as the P4 assignments within a larger construct, P3P4, which includes the dimerization domain P3. We have used nuclear magnetic resonance chemical-shift-perturbation mapping to define the interaction of P1 and P3P4 from the hyperthermophile Thermotoga maritima. The observed chemical-shift changes in P1 upon binding suggest that the P1 domain is bound by interactions on the side opposite the histidine that is phosphorylated. The observed shifts in P3P4 upon P1 binding suggest that P1 is bound at a site distinct from the catalytic site on P4. These results argue that the P1 domain is not bound in a mode that leads to productive phosphate transfer from ATP at the catalytic site and imply the presence of multiple binding modes. The binding mode observed may be regulatory or it may reflect the binding mode needed for effective transfer of the histidyl phosphate of P1 to the substrate proteins CheY and CheB. In either case, this work describes the first direct observation of the interaction between P1 and P4 in CheA.     

Clock Control of Ultradian Respiratory Oscillation Found during Yeast Continuous Culture

A short-period autonomous respiratory ultradian oscillation (period approximately 40 min) occurs during aerobic Saccharomyces cerevisiae continuous culture and is most conveniently studied by monitoring dissolved O(2) concentrations. The resulting data are high quality and reveal fundamental information regarding cellular dynamics. The phase diagram and discrete fast Fourier transformation of the dissolved O(2) values revealed a square waveform with at least eight harmonic peaks. Stepwise changes in temperature revealed that the oscillation was temperature compensated at temperatures ranging from 27 to 34 degrees C when either glucose (temperature quotient [Q(10)] = 1.02) or ethanol (Q(10) = 0.82) was used as a carbon source. After alteration of the temperature beyond the temperature compensation region, phase coherence events for individual cells were quickly lost. As the cell doubling rate decreased from 15.5 to 9.2 h (a factor of 1.68), the periodicity decreased by a factor of 1.26. This indicated that there was a degree of nutrient compensation. Outside the range of dilution rates at which stable oscillation occurred, the mode of oscillation changed. The oscillation in respiratory output is therefore under clock control.     

Plasmonic Perfect Absorbers for Biosensing Applications

We present a theoretical modal investigation of plasmonic perfect absorbers (PPAs) based on the localized surface plasmon resonance (LSPR) for biosensing applications. We design the PPA geometry with a layer of periodic metallic nanoparticles on one side of a dielectric substrate and a single metallic layer on the opposite side. The electromagnetic (EM) fields confine partly in the surrounding medium above the substrate and within the substrate itself. We examine the modes of the PPA geometry for a wavelength range of 600–1500 nm. The fundamental mode of the system provides perfect absorption for a wide angle of incidence 0–70°. The second-order mode shows a strong angular dependence with a sharp resonance and exhibits perfect optical absorption when the critical coupling condition for LSPR is achieved. The coupling condition depends on the size, periodicity, dielectric spacer, and the surrounding material of the system. The strong dependence on the surrounding material makes it a promising candidate for biosensing applications. We introduce a novel approach to investigate the angular dependence of the refractive index change for the PPA system. This novel technique contributes the significant attributes of the LSPR sensors, can be used for any required resonance wavelength depending on geometric design, and it also provides sensitivity analogous to the standard surface plasmon resonance (SPR) biosensors.     

Numerical Simulation of Extinction Spectra of Plasmonically Coupled Nanospheres Using Discrete Dipole Approximation: Influence of Compositional Asymmetry

We demonstrate plasmon coupling phenomenon between equivalent (homodimer) and non-equivalent (heterodimer) spherical shape noble metal nanoparticle (Ag, Au and Al). A systematic comparison of surface plasmon resonance (SPR) and extinction properties of various configurations (monomer, homodimer and heterodimer) has been investigated to observe the effect of compositional asymmetry. Numerical simulation has been done by using discrete dipole approximation method to study the optical properties of plasmonically coupled metal nanoparticles (MNPs). Plasmon coupling between similar nanoparticles allows only higher wavelength bonding plasmon mode while both the plasmon modes lower wavelength antibonding mode as well as higher wavelength bonding mode in the case of heterodimer. Au monomer of radius 50 nm shows resonance peak at 518 nm while plasmon coupling between Au-Au homodimer results in a spectral red shift around 609 nm. Au-Ag plasmonic heterodimer (radius 50 nm) reveals two resonant modes corresponding to higher energy antibonding mode (422 nm) as well as lower energy bonding mode (533 nm). Further, we have shown that interparticle edge-to-edge separation is the most significant parameter affecting the surface plasmon resonances of MNPs. As the inter particle separation decreases, resonance wavelength shows red spectral shift which is maximum for the touching condition. It is shown that plasmon coupling is a reliable strategy to tune the SPR.

     

Dual-mode thin film bulk acoustic wave resonators for parallel sensing of temperature and mass loading

Thin film bulk acoustic wave resonator (FBAR) devices supporting simultaneously multiple resonance modes have been designed for gravimetric sensing. The mechanism for dual-mode generation within a single device has been discussed, and theoretical calculations based on finite element analysis allowed the fabrication of FBARs whose resonance modes have opposite reactions to temperature changes; one of the modes exhibiting a positive frequency shift for a rise of temperature whilst the other mode exhibits a negative shift. Both modes exhibit negative frequency shift for a mass load and hence by monitoring simultaneously both modes it is possible to distinguish whether a change in the resonance frequency is due to a mass load or temperature variation (or a combination of both), avoiding false positive/negative responses in gravimetric sensing without the need of additional reference devices or complex electronics.     

Terahertz Selective Emission Enhancement from a Metasurface-Coupled Photoconductive Emitter in Quasi-Near-Field Zone

We present a THz emission enhancement of 41 times at 0.92 THz from a metasurface made of T-shaped resonators excited in a quasi-near-field zone. Such a metasurface has an intrinsic transmission minimum with Q factor of 4 at 1.25 THz under far-field excitation. When this metasurface is coupled onto the backside of a 625-μm-thick photoconductive emitter, the metasurface is below the Fraunhofer distance to the excitation source. As such, one broad enhancement around 0.47 THz and another extremely narrow enhancement at 0.92 THz in the emission spectrum are observed owing to a quasi-near-field excitation. Theoretically, the Q factor of the latter is up to 307, which is limited by the spectral resolution in experiment. The numerical simulations indicate that the T-shaped resonators serve as an array of plasmonic antennas resulting in the aforementioned emission enhancement of THz radiation.

     

Spoof Localized Surface Plasmons Excited by Plasmonic Waveguide Chip with Corrugated Disk Resonator

We designed and fabricated a millimeter plasmonic chip consisted of coplanar waveguide (CPW) and plasmonic waveguide with one corrugated disk resonator (CDR). The spoof localized surface plasmon (LSP) resonance modes can be excited by the interaction between plasmonic waveguide and CDR. Fundamental and higher order sharp spoof LSP resonances (from dipole to dodecapole) were observed in the transmission coefficient spectrum. The Q-value as high as 268.3 (octupole) was experimentally obtained. Experimental results show good agreement with theoretical and simulated ones. All the results may have potential applications in microchip based sensing and filtering.     

Structural basis of FYCO1 and MAP1LC3A interaction reveals a novel binding mode for Atg8-family proteins

FYCO1 (FYVE and coiled-coil domain containing 1) functions as an autophagy adaptor in directly linking autophagosomes with the microtubule-based kinesin motor, and plays an essential role in the microtubule plus end-directed transport of autophagic vesicles. The specific association of FYCO1 with autophagosomes is mediated by its interaction with Atg8-family proteins decorated on the outer surface of autophagosome. However, the mechanistic basis governing the interaction between FYCO1 and Atg8-family proteins is largely unknown. Here, using biochemical and structural analyses, we demonstrated that FYCO1 contains a unique LC3-interacting region (LIR), which discriminately binds to mammalian Atg8 orthologs and preferentially binds to the MAP1LC3A and MAP1LC3B. In addition to uncovering the detailed molecular mechanism underlying the FYCO1 LIR and MAP1LC3A interaction, the determined FYCO1-LIR-MAP1LC3A complex structure also reveals a unique LIR binding mode for Atg8-family proteins, and demonstrates, first, the functional relevance of adjacent sequences C-terminal to the LIR core motif for binding to Atg8-family proteins. Taken together, our findings not only provide new mechanistic insight into FYCO1-mediated transport of autophagosomes, but also expand our understanding of the interaction modes between LIR motifs and Atg8-family proteins in general.     

On Plasmon Polariton Propagation Along Metallic Nano-Chain

The collective wave type plasmon polariton self–modes in the metallic (Au, Ag) nano-chain were determined and analyzed with respect to the nano-sphere size and chain separation parameters. At some regions for parameters, the undamped modes were identified when the interaction had been assumed as the near-field-zone dipole coupling. These modes were found on the rim of stability of the linear theory, which indicates artifact of the model of near-field coupling. Inclusion of the medium- and far-field zone contributions to dipole interaction removes, however, instability and allows for fully analytical demonstration of quenching of irradiation losses of plasmon polaritons in the chain to the level of only ohmic attenuation. The plasmon polariton dispersion and the group velocity of plasmon polariton wave packets were examined with respect to nano-sphere and chain parameters and mode polarization. Previous numerical results related to long-range plasmon polariton propagation in the chain are transparently interpreted within the analytical approach.