大豆GmCBL7-2生物信息学及非生物胁迫表达分析

钙调磷酸酶B类似蛋白（CBL）作为植物钙离子信号感受器,在植物非生物胁迫和信号转导中发挥重要作用。对大豆Gm CBL7-2基因进行生物信息学分析及非生物胁迫下表达量的检测。Gm CBL7-2基因开放阅读框全长639 bp,编码一个含212个氨基酸的蛋白质,相对分子量24.4 kD,等电点4.56,属于亲水性蛋白。预测结果显示,Gm CBL7-2蛋白主要定位于细胞质中,含有13个磷酸化位点。Gm CBL7-2蛋白质3D结构模型中存在两个Ca2+结合位点。Gm CBL7-2蛋白与拟南芥At CBL7蛋白亲缘关系最近。表达量检测结果显示,Gm CBL7-2在大豆幼苗中可以响应干旱、高盐及低温胁迫,且对干旱胁迫的响应更加显著。     

小麦蔗糖运输基因TaSUT1A的生物信息学分析

蔗糖是糖类在植物体内运输的主要形式。运用生物信息学工具对编码小麦蔗糖蛋白的基因Ta SUT1A进行分析。结果表明小麦Ta SUT1A基因由522个氨基酸组成,分子量为55 k D,等电点为8.68,编码蛋白为亲水性蛋白。进化和聚类分析表明,小麦Ta SUT1A基因与粗山羊草Ae SUT3基因、大麦Hv SUT1基因的亲缘关系较近。     

定位于鸡选择性清扫区域的SH3RF2基因生物信息学分析

为了解鸡SH3RF2基因的结构与功能,由NCBI数据库获得鸡SH3RF2基因的mRNA和氨基酸序列数据信息,利用NCBI/Blast软件进行序列分析、同源性比对确定鸡SH3RF2基因的3’UTR区序列。在此基础上,利用公共数据库和相关软件对SH3RF2基因的CDS(coding sequence)区和其3’UTR(untranslated region)区进行了MicroRNA靶标的预测分析,进一步利用生物信息学相关数据库对其蛋白理化性质和一级结构进行分析,模拟了其二级结构和空间结构并构建了SH3RF2蛋白的系统进化树。     

瓶囊碘泡虫HSP70基因的克隆、鉴定及功能预测

HSP70(Heat shockproteins 70)是分子量约为70 k D的热休克蛋白,具有保护细胞和生命体的重要作用。通过分子克隆和染色体步移技术首次获得瓶囊碘泡虫(Myxobolus ampullicapsulatus Zhao et al.,2008)HSP70家族同源基因的完整序列,并利用生物信息学方法对该基因进行鉴定,同时对它编码的蛋白序列进行分析。结果显示:瓶囊碘泡虫HSP70蛋白为HSPA8同源物,命名为Ma HSPA8;Ma HSPA8基因核苷酸序列全长2 696 bp,共编码662个氨基酸,Ma HSPA8蛋白相对分子量为72.5 k D,等电点为5.37,无跨膜区和信号肽,共有24个潜在的抗原位点。此发现将为进一步研究HSP70基因在瓶囊碘泡虫寄生过程中的作用提供基础资料。
     

中华按蚊AsAce1基因的鉴定及生物信息学分析

利用同源性搜索,在中华按蚊(Anopheles sinensis)基因组中鉴定出1条乙酰胆碱酯酶(Ace)家族序列,命名为AsAce1(GenBank登录号:KU900233)。该基因序列的全长为5592bp,编码区序列长度为2253bp,编码750个氨基酸。在理化性质、二级结构、三级结构、系统发生、基因结构等方面对该基因及所编码蛋白进行了预测和分析。结果表明AsAce1蛋白在按蚊中具有很高的保守性;该蛋白是亲水性蛋白,分子量、等电点分别为82.41kD,5.92,二级结构主要以不规则卷曲为主,无跨膜结构域和信号肽;亚细胞定位显示该蛋白位于细胞质中;基因结构为两种相位(1位和2位内含子)。研究结果为AsAce1基因生物学功能的挖掘奠定了理论基础。
     

中华按蚊AsAce2基因的鉴定及生物信息学分析

【目的】对中华按蚊(Anopheles sinensis)基因组中的乙酰胆碱酯酶(Ace)基因进行鉴定和生物信息学分析。【方法】通过同源性搜索得到1条乙酰胆碱酯酶(Ace)基因序列,命名为AsAce2,分析了该基因的基因结构以及所编码蛋白的理化性质、亚细胞定位、二级结构、三级结构和系统发生关系。【结果】AsAce2基因全长为4008bp,编码区序列长度为1941bp,共编码647个氨基酸;AsAce2蛋白与其他蚊虫的Ace2蛋白具有较高的同源性,在系统发育关系上与冈比亚按蚊(A-nophelesstephensi)的Ace2蛋白和不吉按蚊(Anopheles gambiae)的Ace2蛋白关系更近;AsAce2基因结构中含有3个1位和2个2位内含子;AsAce2蛋白分子式为C3222H4925N875O947S32,为亲水性蛋白,蛋白定位在细胞周质,在13~32位氨基酸为跨膜区,无疏水区和信号肽,二级结构主要以不规则卷曲为主。【结论】丰富了相关基础数据,为进一步研究该基因的功能奠定了基础。
     

中华按蚊AsAce1基因的鉴定及生物信息学分析

利用同源性搜索,在中华按蚊(Anopheles sinensis)基因组中鉴定出1条乙酰胆碱酯酶(Ace)家族序列,命名为AsAce1(GenBank登录号:KU900233)。该基因序列的全长为5 592bp,编码区序列长度为2 253bp,编码750个氨基酸。在理化性质、二级结构、三级结构、系统发生、基因结构等方面对该基因及所编码蛋白进行了预测和分析。结果表明AsAce1蛋白在按蚊中具有很高的保守性;该蛋白是亲水性蛋白,分子量、等电点分别为82.41kD,5.92,二级结构主要以不规则卷曲为主,无跨膜结构域和信号肽;亚细胞定位显示该蛋白位于细胞质中;基因结构为两种相位(1位和2位内含子)。研究结果为AsAce1基因生物学功能的挖掘奠定了理论基础。     

大腹园蛛主壶腹腺丝基因的筛选及序列分析

为研究蛛丝蛋白编码基因和蛋白的组成结构模式、进化,并为蛛丝仿生提供更多的基因资源,运用3D/PCR(three-dimensional polymerase chain reaction)技术对大腹园蛛(A.ventricosus)Fosmid基因组文库进行主壶腹腺丝(MaSp1)编码基因的筛选,并对部分序列进行分析.通过筛选实验室前期构建的Fosmid文库获得含有MaSp1基因的阳性克隆Av11-19-5,通过shotgun测序得到MaSp1部分基因序列MaSp1RC.MaSp1RC长786bp,编码的262个氨基酸(AvMaSp1RC)可划分为保守的C端非重复区(CT)和重复区(Rep).Rep主要由poly-Ala,Glyx和GlyGlyx等模块组成,Ala和Gly含量占总氨基酸的78%;CT中参与形成离子键的氨基酸及helix 4上的疏水模块高度保守.研究结果为蛛丝蛋白二聚化及仿生学研究提供了更多的基因资源.     

菘蓝色氨酸合成酶基因的克隆与生物信息学分析

对菘蓝色氨酸合成酶基因IiTSA进行克隆,并对其进行生物信息学分析.结果表明:菘蓝IiTSA基因全长2 111bp,包含8个外显子和7个内含子;cDNA全长1 035bp,编码311个氨基酸,编码的蛋白定位在叶绿体基质中,是一种无信号肽和跨膜结构域的疏水性蛋白;二级结构主要由α-螺旋、β-转角、延伸链和不规则卷曲组成;序列比对结果显示,菘蓝IiTSA核酸序列和氨基酸序列与其他多种植物的TSA核酸序列和氨基酸序列均具有较高的同源性.     

中华按蚊AsAce2基因的鉴定及生物信息学分析

【目的】对中华按蚊(Anopheles sinensis)基因组中的乙酰胆碱酯酶(Ace)基因进行鉴定和生物信息学分析。【方法】通过同源性搜索得到1条乙酰胆碱酯酶(Ace)基因序列,命名为AsAce2,分析了该基因的基因结构以及所编码蛋白的理化性质、亚细胞定位、二级结构、三级结构和系统发生关系。【结果】AsAce2基因全长为4 008bp,编码区序列长度为1 941bp,共编码647个氨基酸;AsAce2蛋白与其他蚊虫的Ace2蛋白具有较高的同源性,在系统发育关系上与冈比亚按蚊(Anopheles stephensi)的Ace2蛋白和不吉按蚊(Anopheles gambiae)的Ace2蛋白关系更近;AsAce2基因结构中含有3个1位和2个2位内含子;AsAce2蛋白分子式为C_(3222)H_(4925)N_(875)O_(947)S_(32),为亲水性蛋白,蛋白定位在细胞周质,在13~32位氨基酸为跨膜区,无疏水区和信号肽,二级结构主要以不规则卷曲为主。【结论】丰富了相关基础数据,为进一步研究该基因的功能奠定了基础。     

人类TBC1D7蛋白的表达纯化及其在mTOR通路中的作用机制研究

mTOR信号通路在真核细胞代谢调控中发挥着关键的调控作用，该通路核心元件mTORC1复合物的活性受其上游TSC复合物负调控，TSC复合物包括TSC1、TSC2、TBC1D7三种蛋白.以TBC1D7蛋白为研究对象，通过氨基酸序列比对显示多物种来源的TBC1D7蛋白具有较高的保守性，且蛋白三维结构分析证实其分子表面存在高度保守区域.随后，构建了人类TBC1D7蛋白原核表达载体并在大肠杆菌中表达得到全长TBC1D7蛋白，经过酶切去除标签和凝胶排阻层析得到了高纯度TBC1D7蛋白.另一方面，通过在HCM细胞中对TBC1D7进行敲降和过表达，证实了TBC1D7的表达会直接升高mTORC1的活性；反之，升高TBC1D7的表达则会抑制mTORC1的活性.本研究表达和纯化了人类TBC1D7蛋白，并探讨了在人类心肌细胞中TBC1D7的表达与其下游mTOR信号通路之间的联系，为人类TBC1D7蛋白和mTOR信号通路的进一步研究打下了良好基础.     

Quantitative trait loci （QTLs） for quality traits related to protein and starch in wheat

Quality traits in wheat （Triticum aestirum L.） were studied by quantitative trait locus （QTL） analysis in a recombinant inbred line （RIL） population, a set of 131 lines derived from Chuan 35050 × Shannong 483 cross （ChSh）. Grains from RILs were assayed for 21 quality traits related to protein and starch. A total of 35 putative QTLs for 19 traits with a single QTL explaining 7.99-40.52% of phenotypic variations were detected on 10 chromosomes, 1D, 2A, 2D, 3B, 3D, 5A, 6A, 6B, 6D, and 7B. The additive effects of 30 QTLs were positive, contributed by Chuan 35050, the remaining 5 QTLs were negative with the additive effect contributed by Shannong 483. For protein traits, 15 QTLs were obtained and most of them were located on chromosomes 1 D, 3B and 6D, while 20 QTLs for starch traits were detected and most of them were located on chromosomes 3D, 6B and 7B. Only 7 QTLs for protein and starch traits were co-located in three regions on chromosomes 1D, 2A and 2D. These protein and starch trait QTLs showed a distinct distribution pattern in certain regions and chromosomes. Twenty-two QTLs were clustered in 6 regions of 5 chromosomes. Two QTL clusters for protein traits were located on chromosomes 1D and 3B, respectively, three clusters for starch traits on chromosomes 3D, 6B and 7B, and one cluster including protein and starch traits on chromosome 1D.     

Crystal structure of a Src-homology 3 (SH3) domain.

The Src-homologous SH3 domain is a small domain present in a large number of proteins that are involved in signal transduction, such as the Src protein tyrosine kinase, or in membrane-cytoskeleton interactions, but the function of SH3 is still unknown (reviewed in refs 1-3). Here we report the three-dimensional structure at 1.8 A resolution of the SH3 domain of the cytoskeletal protein spectrin expressed in Escherichia coli. The domain is a compact beta-barrel made of five antiparallel beta-strands. The amino acids that are conserved in the SH3 sequences are located close to each other on one side of the molecule. This surface is rich in aromatic and carboxylic amino acids, and is distal to the region of the molecule where the N and C termini reside and where SH3 inserts into the alpha-spectrin chain. We suggest that a protein ligand binds to this conserved surface of SH3.     

Y1.6SiO5:Eu0.43+稀土发光材料发光光谱研究

室温下测量并研究了晶态和非晶态Y1.6 SiO5:Eu0.43+的激发和发射光谱,发现Y16SiO5:Eu0.43+呈现5D0→7F0,5D0→7F1,5D0→7F2跃迁发光光谱.在非晶态时5D0→7F0跃迁发光峰位于579 nm;5D0→7F1跃迁光谱呈现宽峰,峰值位于587nm;5D0→7F2呈现一个强的发射单峰位于612nm.晶态时5D0→7F0发光峰强度及峰位不变,5D0→7F1发射光谱分裂成三重尖峰,5D0→7F2发光峰相对强度减弱,在长波段呈现新的发射峰.     

C. elegans cell-signalling gene sem-5 encodes a protein with SH2 and SH3 domains.

The induction of the hermaphrodite vulva and the migration of the sex myoblasts in the nematode Caenorhabditis elegans are both controlled by intercellular signalling. The gonadal anchor cell induces formation of the vulva from nearby hypodermal cells, and a set of somatic gonadal cells attract the migrating sex myoblasts to their final positions. Many genes required for vulval induction have been identified, including the let-23 receptor tyrosine kinase gene and the let-60 ras gene. We report here the identification and characterization of a new gene, sem-5 (sem, sex muscle abnormal), that acts both in vulval induction and in sex myoblast migration. On the basis of its DNA sequence, sem-5 encodes a novel 228-amino-acid protein which consists almost entirely of one SH2 (SH, src homology region) and two SH3 domains. SH2 and SH3 domains are present in many signalling proteins regulated by receptor and non-receptor tyrosine kinases. Mutations that impair sem-5 activity alter residues that are highly conserved among different SH2 and SH3 domains. Our results indicate that the sem-5 gene encodes a novel protein that functions in at least two distinct cell-signalling processes.     

Structure of the amino-terminal domain of Cbl complexed to its binding site on ZAP-70 kinase

Cbl is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The evolutionarily conserved amino-terminal region of Cbl (Cbl-N) binds to phosphorylated tyrosine residues and has cell-transforming activity. Point mutations in Cbl that disrupt its recognition of phosphotyrosine also interfere with its negative regulatory function and, in the case of v-cbl, with its oncogenic potential. In T cells, Cbl-N binds to the tyrosine-phosphorylated inhibitory site of the protein tyrosine kinase ZAP-70. Here we describe the crystal structure of Cbl-N, both alone and in complex with a phosphopeptide that represents its binding site in ZAP-70. The structures show that Cbl-N is composed of three interacting domains: a four-helix bundle (4H), an EF-hand calcium-binding domain, and a divergent SH2 domain that was not recognizable from the amino-acid sequence of the protein. The calcium-bound EF hand wedges between the 4H and SH2 domains and roughly determines their relative orientation. In the ligand-occupied structure, the 4H domain packs against the SH2 domain and completes its phosphotyrosine-recognition pocket. Disruption of this binding to ZAP-70 as a result of structure-based mutations in the 4H, EF-hand and SH2 domains confirms that the three domains together form an integrated phosphoprotein-recognition module.     

3BP2的SH2结构域的晶体结构和与来源于FRS2的肽的复合物的晶体结构

3BP2最初被作为一个Abl SH3结合蛋白被分离,但是其功能并不确定。除了富含脯氨酸区域和间接与SH3结合外,3BP2还有一个PH和Src同源区2结构域(SH2)。 Src同源区2结构域(SH2)是一个很大的家族,它们通过人体基因组编码的模块间的相互作用来识别酪氨酸磷酸化序列,由此在细胞信号转导和控制中发挥中心作用。肽基可以被SH2识别从而形成一种复合物.这篇文章的内容是关于3BP2的SH2结构域的晶体结构和与来源于FRS2的肽的复合物的晶体结构。依照表面电荷性质,这个结合袋的特异性是半极性半中性的。这个结构的特点明显的表现在,对于亲和性来说,Glu(p+1)比Ala (p+1) 或 Val (p+1)更为重要。     

利用密度泛函理论研究苄硫醇在石墨烯表面的吸附机理

用密度泛函理论方法对C_7H_7SH在纯的、缺陷的和Hg/Pd掺杂的石墨烯表面的吸附机理进行了详细的研究.主要考虑了两种模型:情况1为C_7H_7SH平躺在各种石墨烯表面;情况2为C_7H_7SH垂直地放在各种石墨烯表面,且巯基靠近表面.结果表明,C_7H_7SH初始构型对它们之间的相互作用在某种程度上有一定的影响.情况1较情况2有较大的吸附能.此外,情况1中吸附能的结果显示C_7H_7SH可以更好地与缺陷的、Hg/Pd掺杂石墨烯表面紧密结合.这一结论同态密度、差分电荷密度的分析也是一致的.