Structural Aspects of Hydroxyproline-Containing Proteins

Abstract

The occurrence of hydroxyproline (Hyp) in collagen, Clq and acetylcholinesterase (AChE) raises important questions concerning the role of this unusual imino acid in the structure and function of these proteins. Available data on collagen indicate that Hyp is necessary for the normal secretion of the protein after its synthesis and for the integrity of the triple-helical conformation. Studies from our laboratory have dealt with the structural aspects of the posttranslational conversion of proline to hydroxyproline in collagen mediated by prolyl hydroxylase. We proposed that the β-turn conformation at the Pro-Gly segments in the nascent procollagen molecule are the sites of the enzymatic hydroxylation and that this conformation changes over to the collagen-like helix as a result of the hydroxylation process. Recently, we have provided additional experimental support to our proposal by a) synthesizing specific β-turn oligopeptides containing the Pro-Gly as well as Pro-Ala and Pro-DAla sequences and showing that these act as inhibitors of the enzymatic hydroxylation of a synthetic substrate and b) demonstrating, by circular dichroism spectroscopy, the occurrence of a conformational change leading to the triple-helix as a direct consequence of proline hydroxylation in a non-helical polypeptide substrate. We have also observed that the acquisition of hydroxylation results in a significant enhancement of the rate of folding of the polypeptide chain from the unfolded to the triple-helical conformation. We believe that our observations on proline hydroxylation in collagen should also be applicable to Clq and acetylcholineesterase both of which share the general structural and functional properties of collagen in their “tail” regions. Using the techniques employed in collagen studies, one should be able to assess the role of hydroxyproline in the folding, structural stabilities and functions of Clq and AChE. This would also involve the study of the unhydroxylated and hydroxylated precursors of these proteins which may share common structural features with their collagen counterparts. Finally, a systematic study of hydroxyproline-containing peptides and polypeptides has been initiated by us so as to understand the exact manner in which Hyp participates in the formation and stability of the triple-helical conformation in the proteins in which it occurs.     

水霉Saprolegnia菌丝内细胞颗粒运动的特征

水霉菌丝内细胞颗粒的运动有布朗运动和跳跃运动两种形式,跳跃运动的速度在０．０９至４μｍ／ｓ之间。细胞颗粒运动的速度时制改变．不是匀速运动。在同一根菌丝内细胞颗粒运动的速度与颗粒大小无明显相关性;在不同的菌丝内细胞颗粒运动的速度差异明显。细胞颗粒有共同的运动轨道,运动轨道弯曲,并与细胞长轴基本平行。在同一运动轨道上,不同细胞颗粒的运动速度不同。     

Saltatory search: a theoretical analysis

Many animal search in a saltatory fashion: they move forward,pause briefly, and move forward again. Although many optimal-foragingmodels have been developed, most do not address how an animalsearches for food. We view search strategies as "time-distance"functions to allow not only for the possibility of oscillationsin body speed, as implied by saltatory search, but other movementpatterns as well, including cruise search. The key feature ofour models is distinguishing between the body position and thescan position (where the forager is looking). We see the varyingmovement of saltatory search as a consequence of the curvaturein the functions that relate body speed to benefits (Jensen'sinequality)     

Structural Aspects of Interaction of Homeodomains with DNA

This review is devoted to the structural aspects of interaction of homeodomains with DNA. Presented are the list of all homeodomains with known spatial structure and the alignment of their amino acid sequences. The structure of homeodomains and contacts of their amino acid residues with DNA bases and sugar-phosphate backbone are described. The role of water molecules in DNA binding is discussed. Structures of multicomponent protein complexes on DNA including homeodomains are characterized.     

Saltatory thermal denaturation of double-stranded viral RNAs.

The double-stranded RNAs from bacteriophage phi6 and the replicative form of mengovirus denature upon heating in a series of abrupt steps which resemble the subtransitions (thermalites) observed within the high resolution profiles of small, naturally occurring DNA molecules. Such RNA thermalites are approximately an order of magnitude narrower than typical thermal subtransitions of nominally single-stranded RNA. We conclude that the same features of nucleotide sequence that give rise to cooperative denaturation in DNA genomes are to be found also in RNA genomes. Thus, high resolution thermal denaturation profiles are useful for characterizing double-stranded RNA molecules as well as native DNA in the size range of common viruses. A medium containing dimethylsulfoxide was required to lower the Tm of the RNA samples to a satisfactory temperature range. For double-stranded RNA in 50% dimethylsulfoxide, the dependence of Tm on G . C composition was greater than that of DNA in the same medium and also greater than that of double-stranded RNA in an aqueous medium. The fact that RNA thermalites are broader than DNA thermalites and that the melting temperature of double-stranded RNA has a greater dependence on base composition than that of DNA, indicates that at least one of the thermodynamic parameters for double helix formation in RNA is different from that in DNA.     

Structural Aspects of Photosystem I from Dunaliella salina

A native PSI complex and a PSI core complex have been isolated from the halophilic green alga, Dunaliella salina. The composition and properties of these complexes are similar to previously described PSI complexes from spinach membranes. By growth on ¹⁴C-NaHCO₃, it has been possible to isolate uniformly labeled ¹⁴C-PSI complexes in order to determine PSI subunit stoichiometry. This analysis has shown a ratio of one copy of three low molecular weight subunits (22,000; 15,000; 8,000) per two copies of high molecular weight subunits (84,000). Using a ¹⁴C-labeled cytochrome b₆-f complex as an internal protein standard, it has been possible to estimate the molecular weight of a PSI core complex as about 330,000. This complex contains one P700, two 84,000 subunits, and one subunit of 22,000, 15,000, and 8,000.     

Structural and Dynamics Aspects of ASC Speck Assembly

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Saltatory search in a lateral line predator

The dwarf scorpionfish Scorpaena papillosa detected the hydrodynamic signals produced by prey with the mechanosensory lateral line. This species displayed a pause and move search pattern that is consistent with a saltatory search. The pause phase of the search cycle was probably used to detect prey because pauses often ended early in order to initiate an approach at prey and prey were detected throughout the search space. The move phase of the search cycle repositioned the fish so that it moved approximately a third of the reactive distance. Move distance was found to be the most important factor in gaining novel search space. Turning was shown to be relatively unimportant in gaining novel search space with a high frequency of low turn angles made by the fish. The dwarf scorpionfish, however, exhibited a spiralling or looping pattern over a search path exhibiting a turn bias towards either the left or right. The dwarf scorpionfish adopted a search behaviour that is consistent with a saltatory search and efficient for lateral line predation.     

Quantitative Measurement ed Pollen Tube Growth and Particle Movement

The growth of pollen tube and the cytoplasmic particle movements in pollen tube of Aloe zebrina Haw. were recorded by micro-video and measured by computer image analysis. The saltatory growth of pollen tube was observed. The movement velocity, diameter and the rate of flux of forward particles towards pollen tube tip were greater than those of backward particles. The results indicate that the cytoplasmic particle movements may play a role in transporting “building blocks” for pollen tube growth.     

Structural Aspects of the Salt Glands of the Plumbaginaceae

Faraday, C. D. and Thomson, W. W. 1986. Structural aspects ofthe salt glands of the Plumbaginaceae.—J. exp. Bot. 37:461–470. The epidermal salt-secreting glands of 11 species from six differentgenera within the Plumbaginaceae were examined Gland ultrastructurewas considered with respect to species, secretory activity,and secretory product. All mature glands had a similar ultrastructure.Cytoplasmically dense secretory cells contained a full complementof organelles and structures which included numerous mitochondriaand few plastids. Reconstruction of serial paradermal sectionsthrough entire glands revealed that each gland cell generallycontained one or two vacuoles with a convoluted tonoplast inboth secreting and non-secreting states. The absence of numerousvacuoles and vesicles during secretory activity suggested thation secretion was by a transmembrane pathway rather than bya vesicle-mediated pathway. Key words: Salt glands, ultrastructure, Plumbaginaceae     

利用粒子滤波重建位置细胞编码的运动轨迹

粒子滤波解码算法在神经信息解码中已有较多应用,但在海马区位置细胞集群编码的运动轨迹重建中极其少见.针对大鼠海马区位置细胞的神经元响应特性,采用二次指数泊松方程建立了大鼠运动轨迹的位置细胞集群状态空间编码模型,然后利用仿真数据和实测数据研究了粒子滤波在大鼠运动轨迹重建中的性能,并与扩展卡尔曼和无迹卡尔曼重建算法进行了对比.仿真数据重建结果显示,与后两种算法相比,在相同的重建精度下,粒子滤波算法需要的位置细胞个数相对更少.实测数据重建结果显示,粒子滤波算法重建的轨迹与真实轨迹之间的相关系数和均方根误差均优于扩展卡尔曼和无迹卡尔曼重建算法.这些结果表明,粒子滤波算法不仅能够高效地利用位置细胞集群编码信息,而且具有更高精度的轨迹重建性能,将为空间认知神经机制的深入研究提供有力的技术支持.     

Structural Aspects of Ribosomal RNA Recognition by Ribosomal Proteins

This review is focused on the structural aspects of interaction between ribosomal proteins and ribosomal RNA in bacterial ribosomes and complexes of ribosomal proteins with specific fragments of ribosomal RNA. Special attention is given to the recognition of specific spatial architecture of the double-stranded ribosomal RNA by ribosomal proteins and to the role of unstructured protein regions in stabilization of distant ribosomal RNA segments.     

Structural Aspects of Plant Ferredoxin : NADP+ Oxidoreductases

Ferredoxin reductase (FNR) is ubiquitous among photosynthetic organisms as the enzyme directly responsible for the generation of NADPH. Structural studies over the last 15 years have generated over 30 crystal structures of wild-type and mutant FNRs that have yielded a great deal of insight into its structure-function relations. These insights are summarized and combined to propose a structurally informed cycle for FNR catalysis in vivo.     

Structural, Functional and Phylogenetic Aspects of the Colleter

This article surveys the structural, functional and phylogeneticsignificance of colleters in different dicotyledonous families.Colleters are multicellular secretory structures attached tothe stipule, petiole, lamina, bract, bracteole, calyx and corolla.Colleters are grouped into standard (S), dendroid (D) and brush-like(B) types on the basis of their morphology and structure. Dand B-type colleters occur in certain members of Rubiaceae thatalso have bacterial leaf nodules. Besides the normal structure,epithelial hairs, thin-walled subepidermal cells, laticifersand vasculature are present in many colleters of Apocynaceae.It is probable that the colleter functions to protect the developingmeristem by secreting a viscous fluid. Exudate of D-type colletersare mucilaginous, providing the substrate necessary for thenutrition of endophytic bacteria. Colleter, structure, phylogeny     

Structural Aspects of Digestion of Escherichia coli in Tetrahymena1

Tetrahymena pyriformis ingested Escherichia coli for 15–20 min and the fine structure of food vacuoles was analyzed 5, 15, 30, 60, 90, 120, and 180 min after uptake began. From this analysis, eight vacuolar stages could be defined, and three to four stages were found in each sample. Stage 1 represents forming and newly detached vacuoles with a random distribution of bacteria. Stage 2 is the “dehydration” vacuole in which the bacteria are compacted and a few may lyse. Stage 3, corresponding to the acid phosphatase-positive stage, has an electron-dense vacuolar matrix revealing components of lysed bacteria and the translucent coat of intact bacteria. Stage 4 is the “halo” stage where centrally located, intact bacteria are surrounded by lysed material being removed by pinocytic activity of the vacuolar membrane. Stage 5 represents lysis of bacteria remaining intact until this stage; the stage is apparently followed by a second stage 4. Stage 6 contains few bacterial profiles in a smeared homogeneous mass. Stage 7 contains numerous vesicular membranous structures which apparently become transferred to the cytoplasm as such. Stage 8 represents defecation vacuoles derived from fusion of smaller vacuoles. The main findings are as follows: I) Bacterial lysis may occur during acidification of the vacuole prior to fusion with lysosomes. II) Digestion of bacteria apparently occurs in “bursts” as indicated by the extended time that vacuoles in stages 4 and 5 are present. III) Bacterial membranous structures seem to be transferred directly to the cytoplasm of Tetrahymena. IV) Mass defecation occurs 2 h after uptake begins.