抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1（PfPMP1）与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用，在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员，通过启动转录不同的var基因变异体为抗原变异提供了分子基础。

疟原虫var基因转换速率变化导致抗原变异[英]／Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A

J. Appl. Cryst.の発刊に際して

Peptides or proteins convert under some conditions from their soluble forms into highly ordered fibrillar aggregates. Such transitions can give rise to pathological conditions ranging from neurodegenerative disorders to systemic amyloidoses. In this review, we identify the diseases known to be associated with formation of fibrillar aggregates and the specific peptides and proteins involved in each case. We describe, in addition, that living organisms can take advantage of the inherent ability of proteins to form such structures to generate novel and diverse biological functions. We review recent advances toward the elucidation of the structures of amyloid fibrils and the mechanisms of their formation at a molecular level. Finally, we discuss the relative importance of the common main-chain and side-chain interactions in determining the propensities of proteins to aggregate and describe some of the evidence that the oligomeric fibril precursors are the primary origins of pathological behavior.

/pdf/protein-misfolding-functional-amyloid-and-human-disease-2w386pwb7k.pdf

Protein Misfolding, Functional Amyloid, and Human Disease

We review the dynamical mean-field theory of strongly correlated electron systems which is based on a mapping of lattice models onto quantum impurity models subject to a self-consistency condition. This mapping is exact for models of correlated electrons in the limit of large lattice coordination (or infinite spatial dimensions). It extends the standard mean-field construction from classical statistical mechanics to quantum problems. We discuss the physical ideas underlying this theory and its mathematical derivation. Various analytic and numerical techniques that have been developed recently in order to analyze and solve the dynamical mean-field equations are reviewed and compared to each other. The method can be used for the determination of phase diagrams (by comparing the stability of various types of long-range order), and the calculation of thermodynamic properties, one-particle Green's functions, and response functions. We review in detail the recent progress in understanding the Hubbard model and the Mott metal-insulator transition within this approach, including some comparison to experiments on three-dimensional transition-metal oxides. We present an overview of the rapidly developing field of applications of this method to other systems. The present limitations of the approach, and possible extensions of the formalism are finally discussed. Computer programs for the numerical implementation of this method are also provided with this article.

Dynamical mean-field theory of strongly correlated fermion systems and the limit of infinite dimensions

BIOE 402. Medical Technology Assessment. 2 or 3 hours. Bioentrepreneur course. Assessment of medical technology in the context of commercialization. Objectives, competition, market share, funding, pricing, manufacturing, growth, and intellectual property; many issues unique to biomedical products. Course Information: 2 undergraduate hours. 3 graduate hours. Prerequisite(s): Junior standing or above and consent of the instructor.

“Bioinformatics” 특집을 내면서

We investigate the Josephson current in a graphene superconductor/normal/superconductor junction, where superconductivity is induced by means of the proximity effect from external contacts. We take into account the possibility of anisotropic pairing by also including singlet nearest-neighbor interactions, and investigate how the transport properties are affected by the symmetry of the superconducting order parameter. This corresponds to an extension of the usual on-site interaction assumption, which yields an isotropic $s$-wave order parameter near the Dirac points. Here, we employ a full numerical solution as well as an analytical treatment, and show how the proximity effect may induce exotic types of superconducting states near the Dirac points, e.g., ${p}_{x}$- and ${p}_{y}$-wave pairing or a combination of $s$- and $p+\text{i}p$-wave pairing. We find that the Josephson current exhibits a weakly damped, oscillatory dependence on the length of the junction when the graphene sheet is strongly doped. The analytical and numerical treatments are found to agree well with each other in the $s$-wave case when calculating the critical current and current-phase relationship. For the scenarios with anisotropic superconducting pairing, there is a deviation between the two treatments, especially for the effective ${p}_{x}$-wave order parameter near the Dirac cones which features zero-energy states at the interfaces. This indicates that a numerical, self-consistent approach becomes necessary when treating anisotropic superconducting pairing in graphene.

Josephson current in graphene: Role of unconventional pairing symmetries

https://www.annualreviews.org/doi/pdf/10.1146/annurev.ns.28.120178.000341

Synchrotron Radiation Research

Protein dynamics simulations from nanoseconds to microseconds

A one-dimensional analog of the Kondo lattice is studied by a renormalization-group technique. Previous mean-field results are shown to be reasonable: The system under-goes a second-order crossover transition from an antiferromagnetic state to a Kondo-like state at zero temperature as the spin-conduction-electron coupling is increased. Estimates are given for critical exponents and the behavior of correlation functions near the transition.

Kondo Lattice: Real-Space Renormalization-Group Approach

Structural studies of integral membrane proteins typically rely upon detergent micelles as faithful mimics of the native lipid bilayer. Therefore, membrane protein structure determination would be greatly facilitated by biophysical techniques that are capable of evaluating and assessing the fold and oligomeric state of these proteins solubilized in detergent micelles. In this study, an approach to the characterization of detergent-solubilized integral membrane proteins is presented. Eight Thermotoga maritima membrane proteins were screened for solubility in 11 detergents, and the resulting soluble protein–detergent complexes were characterized with small angle X-ray scattering (SAXS), nuclear magnetic resonance (NMR) spectroscopy, circular dichroism (CD) spectroscopy, and chemical cross-linking to evaluate the homogeneity, oligomeric state, radius of gyration, and overall fold. A new application of SAXS is presented, which does not require density matching, and NMR methods, typically used to evaluate soluble proteins, are successfully applied to detergent-solubilized membrane proteins. Although detergents with longer alkyl chains solubilized the most proteins, further characterization indicates that some of these protein–detergent complexes are not well suited for NMR structure determination due to conformational exchange and protein oligomerization. These results emphasize the need to screen several different detergents and to characterize the protein–detergent complex in order to pursue structural studies. Finally, the physical characterization of the protein–detergent complexes indicates optimal solution conditions for further structural studies for three of the eight overexpressed membrane proteins.

/pdf/expression-purification-and-characterization-of-thermotoga-5ajsevpaah.pdf

Sebastian Doniach

Papers

Josephson current in graphene: Role of unconventional pairing symmetries

Synchrotron Radiation Research

Protein dynamics simulations from nanoseconds to microseconds

Kondo Lattice: Real-Space Renormalization-Group Approach

Expression, purification, and characterization of Thermotoga maritima membrane proteins for structure determination.