Molecular dynamics simulation studies on influenza A virus H5N1 complexed with sialic acid and fluorinated sialic acid

Abbreviations HA Hemagglutinin

MD Molecular Dynamics

MM-PBSA Molecular Mechanics Poisson–Boltzmann Surface Area

NA Neuraminidase

NAMD Nanoscale Molecular Dynamic Simulation

PMEMD Particle Mesh Ewald Molecular Dynamics

RMSD Root-Mean-Square Deviation

RMSF Root-Mean-Square Fluctuation

SIA sialic acid

VMD Visual Molecular Dynamics

Communicated by Ramaswamy H. Sarma     

Specificity of the radioimmunoassay for low molecular weight human kininogen

The authors have studied the crossing immunoreactivity of various antigens in the radioimmunoassay of Low Molecular Weight Kininogen: serum and plasma proteins, human albumin, Bradykinin, High Molecular Weight Kininogen and the products of enzymatic degradation of Low Molecular Weight Kininogen.     

独立学院分子生物学引导式教学改革实践

分子生物学是生命科学专业的基础课程,但由于信息量大、知识更新快、生物大分子之间的作用关系错综复杂,使得该课程内容庞杂抽象、较难理解。学生在学习过程中往往感到十分枯燥,从而失去了学习兴趣,学习效率不高。生物科学教研室通过学业自我效能感评价,科学地分析出独立学院学生的学习特点,并使用信息化引导、双语引导、模块引导及互动引导等方式对分子生物学教学进行了改革。教学改革评价显示,此次教学改革提高了分子生物学的教学效果,增强了学生学习的主动性,激发了学生的科研兴趣,为分子生物学教学改革提供了理论依据。     

Improvement in cyst recovery and molecular detection of Giardia duodenalis from stool samples

Molecular Biology Reports - Molecular detection of Giardia duodenalis by polymerase chain reaction (PCR) is difficult in faecal samples due to inhibitors that contaminate DNA preparations, or due...     

Forthcoming Meetings

9th Summer Symposium in Molecular Biology Molecular Pathways of Cell Growth Control
2nd International Conference on Negative Regulators of Hematopoiesis
European Hair Research Society     

Casein kinase II in signal transduction and cell cycle regulation

Molecular and Cellular Biochemistry - Casein kinase II is a protein serine/threonine kinase that is ubiquitously distributed in eukaryotes. Molecular cloning studies and protein sequence analysis...     

Molecular Probe Data Base (MPDB).

Molecular Probe Data Base contains detailed information on synthetic oligonucleotides with a sequence of up to 100 nucleotides. This database prevalently contains information related to human oligonucleotides used in diagnostics. Molecular Probe Data Base has been made available on-line through the Internet by means of Network Information Retrieval (NIR) tools since 1993. Two years ago, a collaboration with EMBL Data Library was also set up, so that the Molecular Probe Data Base has been integrated with other molecular biology data banks in the sphere of the SRS WWW network browser. In this paper, the most recent enhancements and the current status of the Molecular Probe Data Base are briefly presented.     

Electronic polarization stabilizes tertiary structure prediction of HP-36

Journal of Molecular Modeling - Molecular dynamic (MD) simulations with both implicit and explicit solvent models have been carried out to study the folding dynamics of HP-36 protein. Starting from...     

Comparative liver transcriptome analysis of duck reveals potential genes associated with egg production

Molecular Biology Reports - Molecular studies on egg production in ducks were mostly focused on brain and ovaries as they are directly involved in egg production. Liver plays a vital role in...     

DARPin Ec1-LMWP protein scaffold in targeted delivery of siRNA molecules through EpCAM cancer stem cell marker

Molecular Biology Reports - This study is to investigate the binding ability of Designed Ankyrin Repeat Proteins type Ec1that was fused to Low Molecular Weight Protamine (DARPin Ec1-LMWP) protein...     

Marker-assisted backcross breeding for enhancing β-carotene of QPM inbreds

Molecular Breeding - Molecular breeding is capable of improving important agricultural crop traits by controlling functional genes, aiming to attain high yield, stability and quality. During this...     

The gene PmWFJ is a new member of the complex Pm2 locus conferring unique powdery mildew resistance in wheat breeding line Wanfengjian 34

Molecular Breeding - Molecular identification of wheat powdery mildew resistance (Pm) genes in breeding lines or cultivars is important for resistance breeding. Wanfengjian 34, a Chinese wheat...     

The role of tumor necrosis factor receptor superfamily member 4 (TNFRSF4) gene expression in diagnosis and prognosis of acute myeloid leukemia

Molecular Biology Reports - Acute myeloid leukemia (AML) is still challenging in predicting the prognosis due to its high heterogeneity. Molecular aberrations and abnormalities play a significant...     

Hit a new high

Over the past three years Molecular Pain has grown steadily and clearly demonstrated its ability to publish novel scientific discoveries in the field of pain research in a timely fashion, hence having a strong and positive impact on pain and neuroscience research. Molecular Pain is now officially tracked by the ISI Web of Science, which allows for the calculation of its impact factor. From this calculation, we have found that Molecular Pain is now ranked at the top among pain journals in the world.     

分子灯塔技术及其应用

分子灯塔是一个用荧光标记的核酸探针。本文主要介绍了分子灯塔的结构、性质、作用机制及该项技术的应用     

Effect of dexamethasone on kininogen production by a rat hepatoma cell line

T Kininogen and High Molecular Weight Kininogen were characterized in the cell culture medium of Fao cells, a highly differentiated cell line derived from the Reuber H35 rat hepatoma. Immunoreactive T Kininogen and High Molecular Weight Kininogen identified by direct and specific RIAs were indistinguishable from standard kininogens. Immunoreactive T Kininogen was further identified by HPLC analysis of T kinin released after trypsin hydrolysis of the cell culture medium. The basal release rate of T kininogen was ten-fold higher than that of High Molecular Weight Kininogen. T Kininogen was not stored within the cells contrary to High Molecular Weight Kininogen. The production of the two kininogens in the cell medium was stimulated by dexamethasone up to five times in a dose-dependent manner. The specific antiglucocorticoid compound RU 38486 did not alter the basal rate of kininogen release by Fao cells, but abolished the stimulation by dexamethasone, indicating that dexamethasone exerts a true glucocorticoid type effect.     

The molecular genetics of early human life

Molecular Genetics of Early Human Development(Human Molecular Genetics series), edited by T. Strachan, S. Lindsay and D.I. Wilson, Bios Scientific Publishers, 1997. £65 (xiv+265 pages) ISBN 1 859960 31 6     

Transcriptional ShortCUTs

Recent work from Kuehner and Brow (2008) and Thiebaut et al. (2008) in Molecular Cell and Jenks et al. (2008) in Molecular and Cellular Biology reveals that regulated expression of central nucleotide synthesis pathway components directs start site-dependent RNA polymerase II termination.     

Gibbs-Ensemble Molecular Dynamics: Liquid-Gas Equilibria for Lennard-Jones Spheres and n-Hexane

Abstract

We present a novel method to simulate phase equilibria in atomic and molecular systems. The method is a Molecular Dynamics version of the Gibbs-Ensemble Monte Carlo technique, which has been developed some years ago for the direct simulation of phase equilibria in fluid systems. The idea is to have two separate simulation boxes, which can exchange particles (or molecules) in a thermodynamically consistent fashion. Here we pres the derivation of the generalized equations of motion and discuss the relation of the resulting trajectory averages to the relevant ensemble. We test this Gibbs-Ensemble Molecular Dynamics algorithm by applying it to an atomic and a molecular system, i.e. to the liquid-gas coexistence in a Lennard-Jones fluid and in n-hexane. In both cases our results are in good accord with previous mean field and Gibbs-Ensemble Monte Carlo results as well as with the experimental data in the case of hexane. We also show that our Gibbs-Ensemble Molecular Dynamics algorithm like other Molecular Dynamics techniques can be used to study the dynamics of the system. Self-diffusion coefficients calculated with this method are in agreement with the result of conventional constant temperature Molecular Dynamics.     

Homologous recombination is promoted by translesion polymerase poleta

Two new studies provide in vivo ( [this issue of Molecular Cell]) and in vitro ( [this issue of Molecular Cell]) evidence that poleta functions to extend 3' strands exchanged during homologous recombination and raise the issue of how TLS polymerases are selected onto different substrates.