Driving Forces for Transmembrane α-Helix Oligomerization

We present what we believe to be a novel statistical contact potential based on solved structures of transmembrane (TM) α-helical bundles, and we use this contact potential to investigate the amino acid likelihood of stabilizing helix-helix interfaces. To increase statistical significance, we have reduced the full contact energy matrix to a four-flavor alphabet of amino acids, automatically determined by our methodology, in which we find that polarity is a more dominant factor of group identity than is size, with charged or polar groups most often occupying the same face, whereas polar/apolar residue pairs tend to occupy opposite faces. We found that the most polar residues strongly influence interhelical contact formation, although they occur rarely in TM helical bundles. Two-body contact energies in the reduced letter code are capable of determining native structure from a large decoy set for a majority of test TM proteins, at the same time illustrating that certain higher-order sequence correlations are necessary for more accurate structure predictions.     

Plectranthus: A plant for the future?

The genus Plectranthus (Lamiaceae) is a significant, prolific and extensively used genus in southern Africa. It plays a dominant role in both horticulture and traditional medicine. Some 12 species are documented for their use in treating ailments by various indigenous peoples of southern Africa. It is a firm favourite in gardens and Plectranthus has been bred to further utilise the remarkable diversity of indigenous South African wildflowers with amenity horticultural potential. Although previously subjected to both horticultural (Van Jaarsveld, 2006) and ethnobotanical (Lukhoba et al., 2006) review, Plectranthus is a genus with economic potential in various sectors, and this article aims to review this potential of southern African species.     

A carbon nanotube/silica sol–gel architecture for immobilization of horseradish peroxidase for electrochemical biosensor

A novel third-generation biosensor for hydrogen peroxide (H₂O₂) has been constructed based on horseradish peroxidase (HRP) immobilized by the sol–gel (SG) technology on carbon nanotube (CNT)-modified electrode. CNT has good promotion effects on the direct electron transfer between HRP and the electrode surface and the SG network provides a biocompatible microenvironment for enzyme. The immobilized HRP retained its bioelectrocatalytic activity for the reduction of hydrogen peroxide and can respond to the change of concentration of H₂O₂ rapidly. The heterogeneous electron transfer rate constant was evaluated to be 2.8 ± 0.4 s⁻¹. The amperometric response to H₂O₂ shows a linear relation in the range from 0.5 to 300 μmol l⁻¹ and a detection limit of 0.1 μmol l⁻¹ (S/N = 3). The K _M^app value of HRP immobilized on the electrode surface was found to be 1.35 mmol l⁻¹. The biosensor exhibited high sensitivity, rapid response and excellent long-term stability.     

LC/MS/MS method for analysis of E₂ series prostaglandins and isoprostanes

15-series prostaglandins (PGE₂s) and isoprostanes (isoPGE₂s) are robust biomarkers of oxidative stress, possess potent biological activity, and may be derived through cyclooxygenase or free radical pathways. Thus, their quantification is critical in understanding many biological processes where PG, isoPG, or oxidative stress are involved. LC/MS/MS methods allow a highly selective, sensitive, simultaneous analysis for prostanoids without derivatization. However, the LC/MS/MS methods currently used do not allow for simultaneous separation of the major brain PGE₂/D₂ and isoPGE₂ without derivatization and multiple HPLC separations. The developed LC/MS/MS method allows for the major brain PGE₂/PGD₂/isoPGE₂ such as PGE₂, entPGE₂, 8-isoPGE₂, 11β-PGE₂, PGD₂, and 15(R)-PGD₂ to be separated and quantified without derivatization. The method was validated by analyzing free and esterified isoPGE₂ in mouse brains fixed with head-focused microwave irradiation before or after global ischemia. Using the developed method, we report for the first time the esterified isoPGE₂ levels in brain tissue under basal conditions and upon global ischemia and demonstrate a nonreleasable pool of esterified isoPG upon ischemia. In addition, we demonstrated that PGE₂s found esterified in the sn-2 position in phospholipids are derived from a free radical nonenzymatic pathway under basal conditions. Our method for brain PG analysis provides a high level of selectivity to detect changes in brain PG and isoPG mass under both basal and pathological conditions.     

The Golgi α-1,6 mannosyltransferase KlOch1p of Kluyveromyces lactisis required for Ca2+/calmodulin-based signaling and for proper mitochondrial functionality

Background  

ProteinN-glycosylation is a relevant metabolic pathway in eukaryotes and plays key roles in cell processes. In yeasts, outer chain branching is initiated in the Golgi apparatus by the alpha-1,6-mannosyltransferase Och1p.     

Efficient Semiparametric Marginal Estimation for the Partially Linear Additive Model for Longitudinal/Clustered Data

We consider the efficient estimation of a regression parameter in a partially linear additive nonparametric regression model from repeated measures data when the covariates are multivariate. To date, while there is some literature in the scalar covariate case, the problem has not been addressed in the multivariate additive model case. Ours represents a first contribution in this direction. As part of this work, we first describe the behavior of nonparametric estimators for additive models with repeated measures when the underlying model is not additive. These results are critical when one considers variants of the basic additive model. We apply them to the partially linear additive repeated-measures model, deriving an explicit consistent estimator of the parametric component; if the errors are in addition Gaussian, the estimator is semiparametric efficient. We also apply our basic methods to a unique testing problem that arises in genetic epidemiology; in combination with a projection argument we develop an efficient and easily computed testing scheme. Simulations and an empirical example from nutritional epidemiology illustrate our methods.     

Structural Basis for Difference in Heat Capacity Increments for Ca Binding to Two α-Lactalbumins

Thermodynamic parameters for the unfolding of as well as for the binding of Ca²⁺ to goat α-lactalbumin (GLA) and bovine α-lactalbumin (BLA) are deduced from isothermal titration calorimetry in a buffer containing 10 mM Tris-HCl, pH 7.5 near 25°C. Among the different parameters available, the heat capacity increments (ΔC_p) offer the most direct information for the associated conformational changes of the protein variants. The ΔC_p values for the transition from the native to the molten globule state are rather similar for both proteins, indicating that the extent of the corresponding conformational change is nearly identical. However, the respective ΔC_p values for the binding of Ca²⁺ are clearly different. The data suggest that a distinct protein region is more sensitive to a Ca²⁺-dependent conformational change in BLA than is the case in GLA. By analysis of the tertiary structure we observed an extensive accumulation of negatively charged amino acids near the Ca²⁺-binding site of BLA. In GLA, the cluster of negative charges is reduced by the substitution of Glu-11 by Lys. The observed difference in ΔC_p values for the binding of Ca²⁺ is presumably in part related to this difference in charge distribution.     

Was Homo erectus responsible for the hand-axe culture?

This paper reviews the evidence from Africa, Asia and Europe of the cultural associations of Middle Pleistocene hominids, as well as the hominid skeletal associations of hand-axe remains.The author points out that it is possible to make a good argument—from the evidence of Steinheim, Kanjera and Swanscombe—that the hand-axes at these sites were made by Homo sapiens. On the other hand, on the basis of Fontéchevade and Vértesszöllös, it could be claimed that Middle Pleistocene Homo sapiens was responsible for primitive flake and chopper cultures. The evidence from Java is negative while that from China is directly opposed to the view that Homo erectus made hand-axes. Only from Ternifine in Algeria and Olduvai in Tanzania is there suggestive evidence that Homo erectus in those areas might have been responsible for the hand-axe culture. Thus, it is not possible at present to make any categorical statements as to the makers of either the great hand-axe culture or the flake and chopper culture, during Middle Pleistocene times.     

Cadherin/catenin complex: A target for antiinvasive therapy?

Invasion is a major challenge for cancer therapy. Invasion or noninvasion results from the cross talk between cancer cells and host cells, building molecular invasion-promoter and invasion-suppressor complexes. The E-cadherin/catenin invasion-suppressor complex is attractive as a target for a putative antiinvasive therapy because of its multifactorial regulation at multiple levels and sometimes in a reversible way. Mutations in the E-cadherin gene combined with loss of the wild type allele causes irreversible downregulation in some human cancers. Posttranslational and reversible downregulation may occur by tyrosine phosphorylation of β-catenin. Phosphorylation is implicated also in transmembrane receptor signal transduction through the E-cadherin/catenin complex. Homophilic interaction with E-cadherin on another cell through a dimeric adhesion zipper, involving the HAV sequence of the first extracellular domains, is the major extracellular link of the E-cadherin/catenin complex. Intracellularly, the list of proteins that bind to or signal through the complex or one or more of its elements is growing. In vitro, insulin-like growth factor-I, and tamoxifen may upregulate the functions of the E-cadherin/catenin complex and inhibit invasion, demonstrating that this complex may serve as a target for antiinvasive therapy. © 1996 Wiley-Liss, Inc.     

Stepping Stones：A New Future for Zoological Research

正This past year has been an auspicious one for Chinese science.With the recent lunar landing and the advances and the Chinese Academy of Sciences’growing reputation as the leader of scientific publishing in Asia,the media is now constantly reporting the"great leaps"that Chinese researchers have made.But we would do well to remember an old Chinese proverb:"It is better to take many small steps in the right direction than to make a great leap forward only to stumble backward."None of the recent advances of this year are great leaps in the sense that they occurred from     

AlphaScreen selectivity assay for β-catenin/B-cell lymphoma 9 inhibitors

The aberrant formation of the β-catenin/B-cell lymphoma 9 (BCL9) protein–protein complex is the driving force for many diseases, including cancer. Crystallographic analyses demonstrate that the surface area in β-catenin for interacting with BCL9 is overlapped with that for the β-catenin/E-cadherin interaction. In this study, a robust AlphaScreen selectivity assay was developed to quantify inhibitor potency for the β-catenin/BCL9 interaction and selectivity for β-catenin/BCL9 over β-catenin/E-cadherin interactions. A pilot screen was performed to demonstrat the feasibility of this assay. This selectivity assay is highly sensitive and suitable for adaptation to high-throughput screening. The establishment of this assay lays the foundation for the discovery of selective inhibitors specific for β-catenin/BCL9 interactions.     

Kaiso is a bimodal modulator for Wnt/β-catenin signaling

The Wnt family of secreted ligands plays critical roles during embryonic development and tumorigenesis. Here we show that Kaiso, a dual specific DNA-binding protein, functions as a bimodal regulator of canonical Wnt signaling. Loss-of-function analysis of Kaiso abrogated Wnt-mediated reporter activity and axis duplication, whereas gain-of-function analysis of Kaiso dose-dependently resulted in synergistic and suppressive effects. Our analyses further suggest Kaiso can regulate TCF/LEF1-activity for these effects via modulating HDAC1 and β-catenin-complex formation. Our studies together provide insights into why Kaiso null mice display resistance to intestinal tumors when crossed onto an Apc^Min/+ background.

Stuctured summary

MINT-6823807: HDAC1 (uniprotkb:Q13547) physically interacts (MI:0218) with beta catenin (uniprotkb:P35222) by anti tag coimmunoprecipitation (MI:0007)MINT-6823820: axin (uniprotkb:O15169) physically interacts (MI:0218) with beta catenin (uniprotkb:P35222) by anti tag coimmunoprecipitation (MI:0007)     

Requirements for 5′dRP/AP lyase activity in Ku

The non-homologous end joining (NHEJ) pathway is used in diverse species to repair chromosome breaks, and is defined in part by a requirement for Ku. We previously demonstrated mammalian Ku has intrinsic 5′ deoxyribosephosphate (5′dRP) and apurinic/apyrimidinic (AP) lyase activity, and showed this activity is important for excising abasic site damage from ends. Here we employ systematic mutagenesis to clarify the protein requirements for this activity. We identify lysine 31 in the 70 kD subunit (Ku70 K31) as the primary candidate nucleophile required for catalysis, but additional mutation of Ku70 K160 and six other lysines within Ku80 were required to eliminate all activity. Ku from Saccharomyces cerevisiae also possesses 5′dRP/AP lyase activity, and robust activity was also reliant on lysines in Ku70 analogous to K31 and K160. By comparison, these lysines are not conserved in Xenopus laevis Ku, and Ku from this species has negligible activity. A role for residues flanking Ku70 K31 in expanding the range of abasic site contexts that can be used as substrate was also identified. Our results suggest an active site well located to provide the substrate specificity required for its biological role.     

What Directions for Race/Ethnic Relations? Kaleidoscope of Options

American Minorities and Economic Opportunity. H. Roy Kaplan .
Uncertain Americans: Readings in Ethnic History. 2nd ed. Leonard Dinnerstein and rederic Cople Jaher , eds.
Ethnicity in the Americas. Frances Henry , ed. World Anthropology Series. Sol Tax, gen. ed.
Ethnic Families in America: Patterns and Variations. Charles H. Mindel and Robert W. Habenstein , eds.
Issues in Race and Ethnic Relations: Theory, Research and Action. Jack Rothman , ed.
The Minority Report: An Introduction to Racial, Ethnic, and Gender Relations. Anthony G. Dworkin and Rosalind J. Dworkin .
American Ethnic Revival: Group Pluralism Entering America's Third Century. Jack F. Kinton , ed.