Different approaches for evaluating exponentially weighted nonequilibrium relations

The Kawasaki identity (KI) and the Jarzynski equality (JE) are important nonequilibrium relations. Both of these relations take the form of an ensemble average of an exponential function and can exhibit convergence problems when the average of the exponent differs greatly from the log of the average of the exponential function. In this work, we re-express these relations so that only selected regions need to be evaluated in an attempt to avoid these convergence issues. In the context of measuring free energies, we compare our method to the JE and the literature standard approach, the maximum likelihood estimator (MLE), and show that in a system with asymmetric work distributions it can perform as well as the MLE. For the KI, we derive an analog to the MLE to compare with our relation and show that these two new relations improve on the KI and are complimentary to each other.     

Synthesis,spectroscopic and structural characterisation of vanadium(IV) and oxovanadium(IV) complexes with arsenic donor ligands

The reaction of o-C₆H₄(AsMe₂)₂ with VCl₄ in anhydrous CCl₄ produces orange eight-coordinate [VCl₄{o-C₆H₄(AsMe₂)₂}₂], whilst in CH₂Cl₂ the product is the brown, six-coordinate [VCl₄{o-C₆H₄(AsMe₂)₂}]. In dilute CH₂Cl₂ solution slow decomposition occurs to form the V^III complex [V₂Cl₆{o-C₆H₄(AsMe₂)₂}₂]. Six-coordination is also found in [VCl₄{MeC(CH₂AsMe₂)₃}] and [VCl₄{Et₃As)₂]. Hydrolysis of these complexes occurs readily to form vanadyl (VO²⁺) species, pure samples of which are obtained by reaction of [VOCl₂(thf)₂(H₂O)] with the arsines to form green [VOCl₂{o-C₆H₄(AsMe₂)₂}], [VOCl₂{MeC(CH₂AsMe₂)₃}(H₂O)] and [VOCl₂(Et₃As)₂]. Green [VOCl₂(o-C₆H₄(PMe₂)₂}] is formed from [VOCl₂(thf)₂(H₂O)] and the ligand. The [VOCl₂{o-C₆H₄(PMe₂)₂}] decomposes in thf solution open to air to form the diphosphine dioxide complex [VO{o-C₆H₄(P(O)Me₂)₂}₂(H₂O)]Cl₂, but in contrast, the products formed from similar treatment of [VCl₄{o-C₆H₄(AsMe₂)₂}_x] or [VOCl₂{o-C₆H₄(AsMe₂)₂}] contain the novel arsenic(V) cation [o-C₆H₄(AsMe₂Cl)(μ-O)(AsMe₂)]⁺. X-ray crystal structures are reported for [V₂Cl₆{o-C₆H₄(AsMe₂)₂}₂], [VO(H₂O){o-C₆H₄(P(O)Me₂)₂}₂]Cl₂, [o-C₆H₄(AsMe₂Cl)(μ-O)(AsMe₂)]Cl·[VO(H₂O)₃Cl₂] and powder neutron diffraction data for [VCl₄{o-C₆H₄(AsMe₂)₂}₂].     

Modification of tricine–SDS–PAGE for online and offline analysis of phosphoproteins by ICP-MS

This study describes a modification to tricine sodium dodecyl sulphate polyacrylamide gel electrophoresis to make it more effective for the separation of low molecular mass proteins and for coupling with inductively coupled plasma mass spectrometry (ICP-MS). The modified method employs low-percentage polyacrylamide gels (7–10%) (w/v) and low reagent concentrations that provide efficient separations, good quantitation and low matrix levels that are compatible with ICP-MS. Using phosphopeptides as a model system, and offline analysis, we obtained recoveries of 73% (w/v) in a 9% gel compared with 55% in a conventional 16% gel. Online coupling was achieved by modification of a standard commercially available gel electroelution apparatus and casting of the gel into a 7.3-cm-long tube. Online separation of a digest of β-casein was demonstrated with recovery of the mono- and tetraphosphopeptides, which were identified by comparison with peptide standards. A mass balance study with the standards yielded recoveries of 95% for tetraphosphopeptides and 48% for monophosphopeptides. The factors affecting the separations and recoveries are discussed in detail. The detection limits for 10-μL samples of the mono- and tetraphosphopeptides were 0.7 μM (7 pmol) and 0.2 μM (2 pmol) respectively.     

‘Fixed charge’ chemical derivatization and data dependant multistage tandem mass spectrometry for mapping protein surface residue accessibility

Protein surface accessible residues play an important role in protein folding, protein-protein interactions and protein-ligand binding. However, a common problem associated with the use of selective chemical labeling methods for mapping protein solvent accessible residues is that when a complicated peptide mixture resulting from a large protein or protein complex is analyzed, the modified peptides may be difficult to identify and characterize amongst the largely unmodified peptide population (i.e., the ‘needle in a haystack’ problem). To address this challenge, we describe here the development of a strategy involving the synthesis and application of a novel ‘fixed charge’ sulfonium ion containing lysine-specific protein modification reagent, S,S′-dimethylthiobutanoylhydroxysuccinimide ester (DMBNHS), coupled with capillary HPLC-ESI-MS, automated CID-MS/MS, and data-dependant neutral loss mode MS³ in an ion trap mass spectrometer, to map the surface accessible lysine residues in a small model protein, cellular retinoic acid binding protein II (CRABP II). After reaction with different reagent:protein ratios and digestion with Glu-C, modified peptides are selectively identified and the number of modifications within each peptide are determined by CID-MS/MS, via the exclusive neutral loss(es) of dimethylsulfide, independently of the amino acid composition and precursor ion charge state (i.e., proton mobility) of the peptide. The observation of these characteristic neutral losses are then used to automatically ‘trigger’ the acquisition of an MS³ spectrum to allow the peptide sequence and the site(s) of modification to be characterized. Using this approach, the experimentally determined relative solvent accessibilities of the lysine residues were found to show good agreement with the known solution structure of CRABP II.     

Observation of the crystallization and supersaturation of mixed component NaNO3-Na2SO4 droplets by FTIR-ATR and Raman spectroscopy

We present here a study of the phase behavior of mixed component NaNO(3)-Na(2)SO(4) (SNS) droplets with NaNO(3) to Na(2)SO(4) molar ratios of 1:1, 3:1, and 10:1, comparing observations with thermodynamic predictions. Measurements are made by Fourier transform infrared attenuated total reflection and micro-Raman spectroscopy for SNS droplets deposited on ZnSe and quartz substrates, respectively. The conventional deliquescence/efflorescence hysteresis in phase behavior is observed. On drying, heterogeneous crystallization leads to phase behavior that is consistent with bulk solution thermodynamics, with the formation of the mixed salt NaNO(3)·Na(2)SO(4)·H(2)O, Na(2)SO(4) (s), and NaNO(3) (s) all observed to form at relative humidities that coincide with predictions by the aerosol inorganics model. However, conditioning of the droplet at high relative humidity prior to drying is observed to lead to quantitative differences between the fractions of different salts formed. When substrate effects do not influence the crystallization process, supersaturated solutions are formed, and this leads to the observation of contact ion pairs. Such measurements of the phase behavior of mixed component droplets are important for testing the reliability of thermodynamic models.     

Effective mass anisotropy of hot electrons in nonparabolic conduction bands of n-doped InGaAs films using ultrafast terahertz pump-probe techniques

The anisotropic effective mass of energetic electrons in an isotropic, nonparabolic conduction band is revealed using ultrafast THz-pump-THz-probe techniques in a n-doped InGaAs semiconductor thin film. A microscopic theory is applied to identify the origin of the observed anisotropy and to show that the self-consistent light-matter coupling contributes significantly to the THz response.     

A new criterion for weak subintegrality 1

In a previous paper the authors, together with Balwant Singh, introduced an elementwisc char­acterization of weak subintegrality for an extension A?B of commutative rings. In the present paper we improve our methods for working with this characterization. This leads us to propose two new types of “elementary weakly subintegral extension”.     

Algorithm for complete and rapid retrieval of ultrashort pulseamplitude and phase from a sonogram

We describe an algorithm based on principal-component generalized projections that is capable of unambiguous retrieval of the amplitude and phase of an ultrashort pulse from a measurement of its sonogram. Running on a personal computer, the algorithm can complete more than 50 iterations per second which enables real-time display of an ultrashort pulse intensity and phase profile. Retrieval is demonstrated for a range of pulses with commonly encountered phase errors including linear chirp, self-phase modulation, and cubic spectral phase, and experimental results illustrate good agreement between the retrieved pulse characteristics and independent spectral measurements     

Programmable splice-free quasi-monolithic 2 Gbit/s optical fibre pulse code generator

A mechanically programmable optical fibre lattice pulse code generator, implemented in a quasi-monolithic, splice-free polished coupler technology, has been designed, constructed and characterised. The prototype system permits the generation of reconfigurable four bit pulse sequences with a pulse repetition rate of 2 GHz, i.e. 500 ps interval within the pulses in the output train.<>