植物COP1蛋白的结构与功能

组成型光形态建成1(constitutively photomorphogenic 1,COP1)蛋白是一个分子量为76 kD的核蛋白,它由3个特殊的结构域组成即环形锌指结合域、卷曲螺旋形结构域和WD_40 重复序列,并含有一个核定位信号和一个新型细胞质定位信号,它是一个光形态建成的抑制子,是一个光调控植物发育的分子开关。当植物在暗环境下生长时,COP1蛋白聚集在细胞核内,抑制光形态的建成,而在光环境下,COP1蛋白则分散到细胞质中,解除其抑制作用,恢复光形态建成。COP1蛋白在细胞内的核质分布受多个因素的影响,核内COP1通过与特异转录因子相互作用来调节光形态建成。继从植物中分离鉴定出COP1蛋白之后,动物体内也发现有COP1蛋白的存在,提示COP1蛋白可能在调节动物和植物的发育及信号转导等方面具有共同作用模式。     

植物COP1蛋白的结构与功能

组成型光形态建成 1 (constitutivelyphotomorphogenic 1 ,COP1 )蛋白是一个分子量为 76kD的核蛋白 ,它由 3个特殊的结构域组成即环形锌指结合域、卷曲螺旋形结构域和WD_40重复序列 ,并含有一个核定位信号和一个新型细胞质定位信号 ,它是一个光形态建成的抑制子 ,是一个光调控植物发育的分子开关。当植物在暗环境下生长时 ,COP1蛋白聚集在细胞核内 ,抑制光形态的建成 ,而在光环境下 ,COP1蛋白则分散到细胞质中 ,解除其抑制作用 ,恢复光形态建成。COP1蛋白在细胞内的核质分布受多个因素的影响 ,核内COP1通过与特异转录因子相互作用来调节光形态建成。继从植物中分离鉴定出COP1蛋白之后 ,动物体内也发现有COP1蛋白的存在 ,提示COP1蛋白可能在调节动物和植物的发育及信号转导等方面具有共同作用模式。     

细菌GntR家族转录调控因子的研究进展

GntR家族转录调控因子是细菌中分布最为广泛的一类螺旋–转角–螺旋(helix-turn-helix,HTH)转录调控因子,此家族转录调控因子包含两个功能域,分别是N端的DNA结合结构域和C端的效应物结合结构域/寡聚化作用结构域。DNA结合结构域的氨基酸序列是非常保守的,但效应物结合结构域/寡聚化作用结构域的氨基酸序列却存在很大的差异性。目前许多GntR家族的转录调控因子已经被鉴定,这些转录因子调控细菌许多不同的细胞过程,如运动性、葡萄糖代谢、细菌的耐药性、病原细菌的致病力等。本文主要阐述了GntR家族转录调控因子的发现、二级结构、生物学功能、调控模式等方面的研究进展,旨在为研究者全面、深入地了解GntR家族转录调控因子的功能及作用机理提供帮助。     

Signaling complex organization by PDZ domain proteins

As one of the most abundant protein domains in the genomes of metazoans, PDZ domains play important roles in the targeting of proteins to specific cell membranes, as well as assembling proteins into supramolecular signaling complexes. The structures of individual PDZ domains, along with their diverse cooccurrence with a great variety of other protein domains, provide the biochemical basis for the functional diversity of PDZ proteins. In this review, we first briefly summarize the structure and target-binding properties of PDZ domains. After surveying the SMART protein domain database, we attempt to classify PDZ domain proteins into three general categories. We end the review by presenting several recent studies showing some novel features of PDZ domain proteins.     

Regulation of protein kinases by lipids

Membranes are sites of intense signaling activity within the cell, serving as dynamic scaffolds for the recruitment of signaling molecules and their substrates. The specific and reversible localization of these signaling molecules to membranes is critical for the appropriate activation of downstream signaling pathways. Phospholipid-binding domains, including C1, C2, PH, and PX domains, play critical roles in the membrane targeting of protein kinases. Recent structural studies have identified a new membrane association domain, the Kinase Associated 1 (KA1) domain, which targets a number of yeast and mammalian protein kinases to membranes containing acidic phospholipids. Despite an abundance of localization studies on lipid-binding proteins and structural studies of the isolated lipid-binding domains, the question of how membrane binding is coupled to the activation of the kinase catalytic domain has been virtually untouched. Recently, structural studies on protein kinase C (PKC) have provided some of the first structural insights into the allosteric regulation of protein kinases by lipid second messengers.     

Solution structures of UBA domains reveal a conserved hydrophobic surface for protein-protein interactions

UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signaling via protein kinases. The human homologue of yeast Rad23A (HHR23A) is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of HHR23A UBA(2) showed that the domain forms a compact three-helix bundle. We report the structure of the internal UBA(1) domain of HHR23A. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch. The structural similarity between UBA(1) and UBA(2), in spite of their low level of sequence conservation, leads us to conclude that the structural variability of UBA domains in general is likely to be rather small. On the basis of the structural similarities as well as analysis of sequence conservation, we predict that this hydrophobic surface patch is a common protein-interacting surface present in diverse UBA domains. Furthermore, accumulating evidence that ubiquitin binds to UBA domains leads us to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin. Detailed comparison of the structures of the two UBA domains, combined with previous mutagenesis studies, indicates that the binding site of HIV-1 Vpr on UBA(2) does not completely overlap the ubiquitin binding site.     

Characterization of the molecular basis of group II intron RNA recognition by CRS1-CRM domains

CRM (chloroplast RNA splicing and ribosome maturation) is a recently recognized RNA-binding domain of ancient origin that has been retained in eukaryotic genomes only within the plant lineage. Whereas in bacteria CRM domains exist as single domain proteins involved in ribosome maturation, in plants they are found in a family of proteins that contain between one and four repeats. Several members of this family with multiple CRM domains have been shown to be required for the splicing of specific plastidic group II introns. Detailed biochemical analysis of one of these factors in maize, CRS1, demonstrated its high affinity and specific binding to the single group II intron whose splicing it facilitates, the plastid-encoded atpF intron RNA. Through its association with two intronic regions, CRS1 guides the folding of atpF intron RNA into its predicted "catalytically active" form. To understand how multiple CRM domains cooperate to achieve high affinity sequence-specific binding to RNA, we analyzed the RNA binding affinity and specificity associated with each individual CRM domain in CRS1; whereas CRM3 bound tightly to the RNA, CRM1 associated specifically with a unique region found within atpF intron domain I. CRM2, which demonstrated only low binding affinity, also seems to form specific interactions with regions localized to domains I, III, and IV. We further show that CRM domains share structural similarities and RNA binding characteristics with the well known RNA recognition motif domain.