Buffers to suppress sodium dodecyl sulfate adsorption to polyethylene oxide for protein separation on capillary polymer electrophoresis

Although polyethylene oxide (PEO) offers several advantages as a sieving polymer in SDS capillary polymer electrophoresis (SDS-CPE), solution properties of PEO cause deterioration in the electrophoresis because PEO in solution aggregates itself, degrades into smaller pieces, and forms polymer-micelle complexes with SDS. We examined protein separation on SDS-CPE with PEO as a sieving matrix in four individual buffer solutions: Tris-CHES, Tris-Gly, Tris-Tricine, and Tris-HCl buffers. The solution properties of PEO as a sieving matrix in those buffers were examined by dynamic light scattering (DLS) and by surface tension. Preferential SDS adsorption onto PEO disturbed protein-SDS complexation and impaired the protein separation efficiency. Substantial adsorption of SDS to PEO was particularly observed in Tris-Gly buffer. The Tris-CHES buffer prevented SDS from adsorbing onto the PEO. Only Tris-CHES buffer achieved separation of six proteins. This study demonstrated efficient protein separation on SDS-CPE with PEO.     

Mapping of the primary mannose binding site of pradimicin A

Pradimicin A (PRM-A) is an actinomycete-derived antibiotic with the lectin-like property of being able to recognize D-mannopyranoside (Man) in the presence of Ca(2+) ion. PRM-A and its derivatives have been attracting a great deal of attention as the only family of natural carbohydrate receptors with nonpeptidic skeleton and, more recently, as conceptually novel drug candidates for human immunodeficiency virus (HIV). Despite its scientific interest and potential therapeutic importance, understanding how PRM-A recognizes Man has been severely limited. Conventional interaction analysis of PRM-A with Man in solution has been frustrated by aggregation of PRM-A and the three-component equilibrium consisting of the [PRM-A(2)/Ca(2+)], [PRM-A(2)/Ca(2+)/Man(2)], [PRM-A(2)/Ca(2+)/Man(4)] complexes, and their mixed oligomers. In this Article, we demonstrate the interaction analysis of PRM-A with methyl α-D-mannopyranoside (Man-OMe) in the solid state, which benefits from aggregate-forming propensity of PRM-A and eliminates the problem associated with the complicated equilibrium in solution. Isothermal titration calorimetry (ITC) analysis and coprecipitation experiments revealed that the primary Man binding of PRM-A is markedly tighter than the secondary one, leading to preparation of the solid aggregate solely composed of the [PRM-A(2)/Ca(2+)/Man-OMe(2)] complex. The simple 1:1 complexes of biosynthetically (13)C-enriched PRM-As and [(13)C(6)]Man-OMe facilitated the analysis of the primary Man binding of PRM-A by two-dimensional dipolar-assisted rotational resonance (2D-DARR), which clearly identified that the cavity consisted of D-alanine moiety and ABC rings of PRM-A is the Man binding site. Interestingly, the proposed Man binding site of PRM-A seems to resemble the typical architecture of artificial carbohydrate receptors.     

Rigidity problems in toric topology: A survey

Several rigidity problems in toric topology are addressed in the survey paper by the second and third authors, “Classification Problems of Toric Manifolds via Topology” (in Toric Topology, Am. Math. Soc., Providence, RI, 2008, pp. 273–286). In the present paper, we survey the results on those problems including recent developments.     

Liquid phase formation of alkyl- and perfluoro-phosphonic acid derived monolayers on magnesium alloy AZ31 and their chemical properties

Alkyl- and perfluoro-phosphonic acid derived SAMs were successfully formed on Mg alloy by liquid phase method for the first time. The chemical and anticorrosive properties of the prepared SAMs on magnesium alloys were characterized using contact angle measurements, X-ray photoelectron spectroscopy (XPS), atomic force microscopy (AFM), and electrochemical measurements. Water contact angle measurements revealed that the maximum advancing/receding water contact angles of n-octyl (OP: CH(3)(CH(2))(7)PO(OH)(2)), n-dodecyl (DP: CH(3)(CH(2))(11)PO(OH)(2)), n-octadecyl (ODP: CH(3)(CH(2))(17)PO(OH)(2)) phosphonic acid, and 2-(perfluorohexyl)ethyl (PFEP: CF(3)(CF(2))(5)CH(2)CH(2)PO(OH)(2)) phosphonic acid were 105.1/64.7°, 108.3/69.6°, 111.9/75.2°, and 115.2/67.4° respectively. In the case of alkylphosphonic acid SAMs (OP, DP, and ODP), the advancing and receding water contact angles increased with an increase in the preparation time. The angle-resolved XPS (AR-XPS) data revealed that the film thicknesses of the OP, DP, ODP, PFEP on Mg alloy were estimated to be 0.8, 1.2, 1.7, and 1.1 nm, respectively. The XPS O 1s data support that the phosphonic acid derived SAM is covalently bound to the oxide or hydroxide surface of the Mg alloy in a monodenate or bidenate manner. Chemical stability of the alkyl- and perfluoro-phosphonic acid modified Mg alloy surfaces was investigated using aqueous solutions at pH=4.0, 7.0, and 10.0. The contact angles of OP, DP, and PFEP modified Mg surface decreased rapidly within the first 5 min after immersion in all the aqueous solutions and were less than 20°. On the other hand, the contact angles of the ODP modified Mg alloy after immersion in aqueous solutions at pH 4, 7 and 10 for 5 min were 45.1°, 89.3,° and 85.5°, respectively. The ODP modified Mg alloy had highest chemical stability in four types of the phosphonic acid derived SAMs used in this study, indicating that the molecular density of ODP on Mg alloy would be higher than those of OP, DP, PFEP on Mg alloy. The corrosion resistance of ODP modified Mg alloy was investigated by potentiodynamic polarization curve measurements. The ODP modified Mg alloy exhibits protective properties in a solution containing Cl(-) ions compared to unmodified Mg alloy.     

Synthesis-guided structure revision of the sarcodonin, sarcoviolin, and hydnellin natural product family

A sweeping structural revision of the sarcodonin natural product family (published structures 1a-13a) is proposed after extensive studies aimed at their chemical synthesis. Key features of revised structure 1b include replacement of the N,N-dioxide moiety with an oxime, ring-opening of the central diketopiperazine, and transposition of the terphenyl wing from the 1β-2β position of 1a to the 2β-3β position of 1b. This structure revision arose from the serendipitous synthesis of a benzodioxane aminal (44) whose structure was unambiguously determined by X-ray crystallography and whose spectral properties bore considerable resemblance to the published data for the sarcodonins. A versatile new method for O-arylation of hydroxamic acids is also reported herein, as well as a manganese(III)-mediated α-oxidation of hydroxamic acids to aminals.     

[η6‐1‐Chloro‐2‐(pyrrolidin‐1‐yl)benzene](η5‐cyclopentadienyl)iron(II) hexafluoridophosphate and (η5‐cyclopentadienyl){2‐[η6‐2‐(pyrrolidin‐1‐yl)phenyl]phenol}iron(II) hexafluoridophosphate

In the complex salt [η⁶‐1‐chloro‐2‐(pyrrolidin‐1‐yl)benzene](η⁵‐cyclopentadienyl)iron(II) hexafluoridophosphate, [Fe(C₅H₅)(C₁₀H₁₂ClN)]PF₆, (I), the complexed cyclopentadienyl and benzene rings are almost parallel, with a dihedral angle between their planes of 2.3 (3)°. In a related complex salt, (η⁵‐cyclopentadienyl){2‐[η⁶‐2‐(pyrrolidin‐1‐yl)phenyl]phenol}iron(II) hexafluoridophosphate, [Fe(C₅H₅)(C₁₆H₁₇NO)]PF₆, (II), the analogous angle is 5.4 (1)°. In both complexes, the aromatic C atom bound to the pyrrolidine N atom is located out of the plane defined by the remaining five ring C atoms. The dihedral angles between the plane of these five ring atoms and a plane defined by the N‐bound aromatic C atom and two neighboring C atoms are 9.7 (8) and 5.6 (2)° for (I) and (II), respectively.     

Data driven time scale in Gaussian quasi-likelihood inference

We study parametric estimation of ergodic diffusions observed at high frequency. Different from the previous studies, we suppose that sampling stepsize is unknown, thereby making the conventional Gaussian quasi-likelihood not directly applicable. In this situation, we construct estimators of both model parameters and sampling stepsize in a fully explicit way, and prove that they are jointly asymptotically normally distributed. High order uniform integrability of the obtained estimator is also derived. Further, we propose the Schwarz (BIC) type statistics for model selection and show its model-selection consistency. We conducted some numerical experiments and found that the observed finite-sample performance well supports our theoretical findings.

     

The LHCf experiment at LHC

The LHCf experiment will be installed in 2007 on the LHC collider in the forward direction at ±140m from the ATLAS interaction point. The purpose of LHCf is to precisely measure the pion production cross section near zero degrees through the measurement of the photons produced in neutral pion decay. This measurement is crucial for the simulation of the showers induced in the atmosphere by very high energy cosmic rays; the 14 TeV energy available in the center of mass frame corresponds in fact to an equivalent energy of 10¹⁷ eV in the laboratory system. The paper focus on the proposed experiment and on the physics results that we expect from it.     

Binding position of phenylbutazone with bovine serum albumin determined by measuring nuclear magnetic resonance relaxation time

The binding of phenylbutazone (PB) to bovine serum albumin (BSA) was considered to be predominantly due to hydrophobic interaction based on the thermodynamic parameters obtained by an equilibrium dialysis method. Little variation of proton nuclear magnetic resonance (1H-NMR) chemical shift of PB was found with change in the concentration of PB (0.5-5 mM) or upon the addition of BSA (7.25 x 10(-5) M). The NMR spectrum of PB in 0.1 M phosphate buffer solution at pH 7 showed that PB existed as a mesomeric anion. The spin-lattice relaxation time (T1) of PB was almost concentration-independent, but decreased in the presence of BSA to 36-38% for the phenyl group and 48-100% for the butyl group. The spin-spin relaxation time (T2) of PB was also almost independent of concentration, but was remarkably decreased in the presence of BSA to ca. 2.5% for the phenyl group and ca. 6-9% for the butyl group. The ratios of the spin-spin relaxation rate (1/T2) of the free PB to that of the bound PB were ca. 5000-11000 for the butyl group and ca. 23000 for the phenyl group. The binding of PB to BSA was considered to involve primarily the phenyl group.