Internal structure of the silk fibroin gene of Bombyx mori. I The fibroin gene consists of a homogeneous alternating array of repetitious crystalline and amorphous coding sequences

The DNA sequence orgainzation of the protein encoding region of the gene for silk fibroin has been analyzed. The accompanying paper (Manningm R. F., and Gage, L. P. (1980) J. Biol. Chem. 255, 9451-9457) shows that the total length of the gene, and its protein, as well as the pattern of restriction sites in the gene is highly polymorphic among inbred stocks of Bombyx mori, In this paper, those features of fibroin gene structure which are invariant among these alleles are presented. Fibroin is composed primarily of relatively short "crystalline" and "amorphous" peptides of known sequence whose arrangement in the protein is unknown. Knowledge of the codons most commonly used in fibroin mRNA allowed utilization of particular restriction inzymes as a means for determing the nature and organization of crystalline and amorphous coding sequences in the fibroin gene. Three restriction endonucleases were identified that cleve sequences coding for amorphous region peptides. Their cleavage pattern revelaed that the repetitive coding sequence of the gene core (approximately 15 kilobases) is divided into at least 10 large crystalline coding domains interrupted by smaller amorphous coding domains. Many restriction endoncleases do not cleave the fibroin core at all, three of them with four gase recognition sequences. Specific deductions as to codon usage and repetitive sequence homogeneity in the gene follow from these results. One novel finding is the rigorous exclusion of the glycine codon GGA prior to serine codons even though this glycine codon is used frequently prior to alanine codons. The sequence homogeneity and the regularly alternating arrangement of crystalline and amorphous coding sequences of the gene are discussed in terms of the function of fibroin protein and the evolution of highly repetitive DNA.     

丝素蛋白溶液的液晶现象及其形成机理

结合工作实践,综合介绍了蜘蛛和蚕丝素蛋白溶液形成液晶的三种观点：Viney等认为是丝素球状分子通过线性聚集成棒状结构而形成液晶;Magoshi等认为是在剪切力等的作用下,丝素分子通过采取13折叠构像而产生液晶现象;于同隐等则认为是随着溶液浓度的增加,丝素分子由无规线团逐渐变成接近β折叠片的结构而产生液晶现象。     

The effect of ceramide on phosphatidylcholine membranes: a deuterium NMR study

Biological membranes contain domains having distinct physical properties. We study defined mixtures of phosphoglycerolipids and sphingolipids to ascertain the fundamental interactions governing these lipids in the absence of other cell membrane components. By using (2)H-NMR we have determined the temperature and composition dependencies of membrane structure and phase behavior for aqueous dispersions of 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) and the ceramide (Cer) N-palmitoyl-sphingosine. It is found that gel and liquid-crystalline phases coexist over a wide range of temperature and composition. Domains of different composition and phase state are present in POPC/Cer membranes at physiological temperature for Cer concentrations exceeding 15 mol %. The acyl chains of liquid crystalline phase POPC are ordered by the presence of Cer. Moreover, Cer's chain ordering is greater than that of POPC in the liquid crystalline phase. However, there is no evidence of liquid-liquid phase separation in the liquid crystalline region of the POPC/Cer phase diagram.     

Phase behavior and hydration of silk fibroin

The osmotic stress method was applied to study the thermodynamics of supramolecular self-assembly phenomena in crystallizable segments of Bombyx mori silkworm silk fibroin. By controlling compositions and phases of silk fibroin solution, the method provided a means for the direct investigation of microscopic and thermodynamic details of these intermolecular interactions in aqueous media. It is apparent that as osmotic pressure increases, silk fibroin molecules are crowded together to form silk I structure and then with further increase in osmotic pressure become an antiparallel beta-sheet structure, silk II. A partial ternary phase diagram of water-silk fibroin-LiBr was constructed based on the results. The results provide quantitative evidence that the silk I structure must contain water of hydration. The enhanced control over structure and phase behavior using osmotic stress, as embodied in the phase diagram, could potentially be utilized to design a new route for water-based wet spinning of regenerated silk fibroin.     

Kinetic structures in multi-phase liquid-crystalline composite materials

A mesoscopic kinetic model for phase separation in the presence of liquid crystalline order has been formulated and solved using high performance numerical methods. The thermodynamic phase diagram on temperature–polymer concentration plane indicates the presence of coexistence regions between isotropic and liquid crystalline phases. These regions are partitioned by the phase-separation spinodal and the phase-ordering spinodal. We characterize the morphologies following temperature quenches in the phase diagram. The scenario is completely different from isotropic mixing since the continuous phase exhibits liquid crystalline ordering. Microdomains of the dispersed phase induce long- and short-range forces affecting the kinetics of the phase separation and the emerging structures. Presence of topological defects and elastic distortions around the microdomains formed during the phase separation dominate the morphology. The free energy of the system establishes dynamics and correlations of the morphological structures.     

DNA mesophases induced by spermidine: structural properties and biological implications.

Conditions of formation of DNA aggregates by the addition of spermidine were determined with 146 base pair DNA fragments as a function of spermidine and NaCl concentration. Two different phases of spermidine-DNA complexes are obtained: a cholesteric liquid crystalline phase with a large helical pitch, with interhelix distances ranging from 31.6 to 32.6 A, and a columnar hexagonal phase with a restricted fluidity in which DNA molecules are more closely packed (29.85 +/- 0.05 A). In both phases, the DNA molecule retains its B form. These phases are always observed in equilibrium with the dilute isotropic solution, and their phase diagram is defined for a DNA concentration of 1 mg/ml. DNA liquid crystalline phases induced by spermidine are compared with the DNA mesophases already described in concentrated solutions in the absence of spermidine. We propose that the liquid crystalline character of the spermidine DNA complexes is involved in the stimulation of the functional properties of the DNA reported in numerous experimental articles, and we discuss how the nature of the phase could regulate the degree of activity of the molecule.     

Translational diffusion and fluid domain connectivity in a two-component, two-phase phospholipid bilayer.

The two-dimensional connectivity is examined for mixed bilayers of dimyristoyl phosphatidylcholine (DMPC) and distearoyl phosphatidylcholine (DSPC) as a function of composition and temperature at constant pressure using the fluorescence recovery after photobleaching (FRAP) method. These phospholipid mixtures exhibit peritectic behavior with a large region in which both gel and liquid crystalline phases coexist. Dilauroyl phosphatidylethanolamine covalently linked through the amino function in its head group to the fluorescent nitrobenzodiazolyl group (NBD-DLPE) was used as the fluorescent probe in this study, because it was found to partition almost exclusively in the liquid crystalline phase. The results of these studies show the line of connectivity to be close to the liquidus line on the phase diagram over a rather broad range of concentrations. In this range, a gel phase comprising approximately 20% of the system disconnects a liquid crystalline phase comprising 80% of the system. The implications of this result are discussed for domain shape and the organization of biological membrane components.     

Internal structure of the silk fibroin gene of Bombyx mori. II. Remarkable polymorphism of the organization of crystalline and amorphous coding sequences

Alleles of the silk fibroin locus from 22 inbred stocks of Bombyx mori were compared. Nineteen alleles differing from one another in length and internal sequence organization were distinguished. Individuals from a single stock generaly are homozygous for a particular allele, as judged by their gene restriction pattern and the length of the fibroin protein produced. Restriction with endonucleases having four base recognition sequences revealed no variation with respect to these particular coding sequences among the alleles tested. Furthermore, digestion with endonucleases specific for amorphous coding sequences indicated that all the alleles tested had amorphous coding sequence domains alternating regularly with crystalline domains just as was found for the L allele. The stocks differed considerably in their fibroin length, and in the total length of the fibroin coding regions of their genes. These differences were accounted for by variation in the lengths of crystalline coding domains when compared to the ends of the genes. Several characteristics of the alleles indicates that this variation results from recombination between the highly repetitive coding sequences of misaligned genes (homologous unequal crossing-over). Polymorphism of the fibroin gene in B, mori appears to be greater than for any other gene for which data are available.     

Polymorphism and Liquid‐Liquid Demixing in Supersaturated Drug Solution

In the field of pharmaceutical compound crystallization, one of the challenging tasks is to control the nucleation and the polymorphism. With these objectives, it becomes clear that an important stage is the phase diagram determination of the considered substance. We have investigated the phase diagram of a pharmaceutical compound in a mixture of ethanol/water. We have observed and characterized, in this phase diagram, a solid‐solid (polymorphism) and a liquid‐liquid phase separation as a function of temperature and drug substance concentration.     

Dissolution of Bombyx mori silk fibroin in the calcium nitrate tetrahydrate-methanol system and aspects of wet spinning of fibroin solution

There are still several problems associated with the spinning of dialyzed silk fibroin solutions. In this work some of these problems have been examined. The calcium nitrate tetrahydrate-methanol system was used to dissolve the silk fibroin. A compositional phase diagram was constructed at various concentrations of the solvent system. Regenerated fibroin powders from undialyzed fibroin solution in several coagulants showed different conformations. Regenerated powders from several coagulants except methanol and ethanol were resoluble in water. Atomic absorption analysis revealed that the calcium cations strongly interact with fibroin molecules in dialyzed fibroin solution, which may interfere with the regeneration of a strong fiber. Kinetic studies to determine the diffusion coefficient of methanol into dialyzed and concentrated fibroin solution were reported. The properties of both original and regenerated fibroin such as solubility in water and thermal behaviors using DSC were compared. Regenerated fibroin fiber was spun by the wet spinning method. An X-ray diffractogram showed that the regeneration process decreased the crystallinity of regenerated fibroin fiber. SEM images of the surface and cross section of the regenerated fibroin fibers were discussed.     

Germination and ion leakage are linked with phase transitions: of membrane lipids during imbibition of Typha latifolia pollen

In previous studies on the causes of imbibitional leakage in dry polien we have presented data which suggest that the leakage is due to a gel to liquid crystalline phase transition in membrane phospholipids during the rehydration event. In the present study we greatly extend and confirm those results. A supplemented phase diagram for the hydration dependent transition temperature of membrane phospholipids in pollen is presented. In pollen containing > 0.05 g H₂O g⁻¹ dry weight at the time of imbibition, this phase diagram for the phospholipids precisely predicts the conditions for rehydration under which germination is maximal and leakage is minimal. However, in extremely dry pollen, containing < 0.05 g H₂O g⁻¹ dry weight the predictive value of the phase diagram for phospholipids in the pollen is not in agreement with data for germination and leakage. Thus, an alternative explanation must be sought for leakage in these circumstances. We examined the available evidence and suggest here that a modified form of the non-bilayer phase hypothesis proposed by Simon (1974) may apply in the specialized case of extremely dry cells.     

A simple analytical model of water

Water is an unusual liquid. It expands upon freezing, has minima in its volume, heat capacity, and isothermal compressibility with temperature, and shows signs of a first-order phase transition when supercooled. These anomalies disappear at high pressures. We review a recent analytical theory that predicts water's thermal properties and the main features of its phase diagram, including multiple crystalline phases and a fluid-fluid transition in the supercooled liquid. It also predicts a fragile-to-strong crossover in supercooled water's temperature-dependent relaxation processes. The theory is based on a simplified model for how triplets of waters interact via hydrogen bonds, steric repulsions, and dispersion attractions. It is designed to give simple insights into the microscopic origins of water's properties.     

丝素蛋白/羟基磷灰石复合物对磷酸钙骨水泥性能的影响

目的：磷酸钙骨水泥（Calcium phosphate cement,CPC）以其诸多优点正得到了越来越多的应用,但其较差的力学性能表现也限制了它的使用范围。本研究目的在于改善磷酸钙骨水泥的力学性能,同时评估改性后的磷酸钙骨水泥的其他性能。方法：通过丝素蛋白（Silk fibroin,SF）的矿化自组装方法制备丝素蛋白／羟基磷灰石复合物（silk fibroin/hydroxyapitite composite, SF/HA）。按照1％、2％、3％、4％的质量分数加入磷酸钙骨水泥中,与磷酸钙骨水泥组对比。比较内容包括力学强度、抗渍散性能及细胞毒性。结果：以丝素蛋白溶液为液相组的磷酸钙骨水泥强度大约为35MPa。随后随着添加丝素蛋白／羟基磷灰石复合物的质量分数从1％增至3％,磷酸钙骨水泥的强度逐渐增加（P〈0．05）,最高约至45MPa。而当丝素蛋白／羟基磷灰石的质量分数达到4％时,磷酸钙骨水泥的强度较质量分数3％组小幅度下降至43MPa（P〈0．05）。以丝素蛋白溶液作为液相时,磷酸钙骨水泥的抗溃散能力也得到了加强。在MTT法测定细胞活力的对照实验中,无论是加入丝素蛋白溶液或丝素蛋白／羟基磷灰石复合物,都未观察到细胞毒性。结论：在磷酸钙骨水泥中加入3％质量分数的丝素蛋白／羟基磷灰石复合物,能显著提高磷酸钙骨水泥的抗压强度。而丝素蛋白溶液作为液相可改善磷酸钙骨水泥的抗溃散能力。同时,丝素蛋白和丝素蛋白／羟基磷灰石复合物都不表现出细胞毒性。更理想的力学强度和更强的抗溃散能力,大大扩展了磷酸钙骨水泥的应用范围。     

大腹园蛛拖丝蛋白一级结构初步研究

采用部分酸水解的方法对大腹园蛛（Ａｒａｎｅｕｓｖｅｎｔｒｏｃｏｓｕｓ）拖丝纤维蛋白进行水解,通过反相高液相色谱分离到一些重复小肽片段,对其序列分析表明,该蜘蛛拖丝蛋白与肖蛸科的棒络新妇蛛（Ｎｅｐｈｉｌａｃｌａｖｉｐｅｓ）丝蛋白的序列比较,有一个完全相同的肽段ＧＹＧＰＧ,其余所测片段测存在差异,显示不同种属的蜘蛛丝在一级结构上的同异,并探讨了结构和功能的关系。     

Structural study of irregular amino acid sequences in the heavy chain of Bombyx mori silk fibroin

Recently, genetic studies have revealed the entire amino acid sequence of Bombyx mori silk fibroin. It is known from X-ray diffraction studies that the beta-sheet crystalline structure (silk II) of fibroin is composed of hexaamino acid sequences of GAGAGS. However, in the heavy chain of B. mori silk fibroin, there are also present 11 irregular sequences, with about 31 amino acid residues (irregular GT approximately GT sequences). The structure and role of these irregular sequences have remained unknown. One of the most frequently appearing irregular sequences was synthesized and its 3-D solution structure was studied by high-resolution 2-D NMR techniques. The 3-D structure determined for this peptide shows that it makes a loop structure (distorted omega shape), which implies that the preceding backbone direction is changed by 180 degrees, i.e., reversed, by this sequence. This may facilitate the beta-sheet formation between the crystal-forming building blocks, GAGAGS/GY approximately GY sequences, in the fibroin heavy chain.     

The effect of ergosterol on dipalmitoylphosphatidylcholine bilayers: a deuterium NMR and calorimetric study

We have studied the effect of ergosterol, an important component of fungal plasma membranes, on the physical properties of dipalmitoylphosphatidylcholine (DPPC) multibilayers using deuterium nuclear magnetic resonance ((2)H NMR) and differential scanning calorimetry (DSC). For the (2)H NMR experiments the sn-1 chain of DPPC was perdeuterated and NMR spectra were taken as a function of temperature and ergosterol concentration. The phase diagram, constructed from the NMR spectra and the DSC thermograms, exhibits both solid-ordered (so) + liquid-ordered (lo) and liquid-disordered (ld) + lo phase coexistence regions with a clear three-phase line. This is the first demonstration that lo domains exist in liquid crystalline membranes containing ergosterol. The domain sizes in the ld+lo phase coexistence region were estimated by analyzing the exchange of labeled DPPC between the two regions, and depend on ergosterol concentration. The DPPC-ergosterol phase diagram is similar to that of the DPPC-cholesterol multibilayer system except that the so+lo and ld+lo phase coexistence regions are considerably broader.     

Formation of liquid crystalline phase of actin filament solutions and its dependence on filament length as studied by optical birefringence.

We studied the formation and structure of liquid crystalline phase of F-actin solutions by polarized light photometry, assuming that a small domain of the liquid crystalline phase works as a linear retardation plate. Transmittance of polarized light due to the birefringence of liquid crystalline phase appeared above a threshold concentration of F-actin. The threshold increased with a decrease in filament length, which was regulated by calcium-activated gelsolin. The intensity increased linearly with increasing concentrations until it reached a stationary value. The deviation of optical axis direction of the putative retardation plate was estimated 7-15 degrees. These results indicate that:(a) the liquid crystalline phase is formed above a threshold concentration of F-actin; (b) the threshold is proportional to the inverse of filament length; (c) the ordered phase coexists with the isotropic one, increasing the volume fraction with increasing concentrations until all filaments take the liquid crystalline structure; (d) the filaments in liquid crystalline phase take a highly ordered array. These results can be attributed to the excluded volume effect of rod-like molecules on the formation of liquid crystalline structure.     

Phase equilibria and structure of dry and hydrated egg lecithin

The behavior of purified egg lecithin in water has been investigated in relation to the quantity of water present and the temperature. The complete binary phase diagram of egg lecithin-water is presented as well as X-ray diffraction data on selected mixtures. Dry egg lecithin is present in at least partially crystalline form until about 40 degrees C. Above this temperature it forms a "wax-like" phase up to about 88 degrees C. From 88 to 109 degrees C it forms a viscous isotropic phase which gives face-centered cubic spacings by X-ray analysis. Above 110 degrees C its texture is "neat" and the structure is assumed to be lamellar until its final melting point at 231 degrees C. Hydrated lecithin forms (except for a small zone of cubic phase at low water concentrations and high temperature) a lamellar liquid crystalline phase. This phase contains up to 45% water at 20 degrees C. Mixtures containing more water separate into two phases, the lamellar liquid crystalline phase and water. In the melting curve of hydrated lecithin a eutectic is noted at about 16% water and the cubic phase seen when less water is present disappears at this composition of the mixture. These facts, along with previous vapor pressure measurements, suggest that there is a structural change at about 16% water. X-ray diffraction studies of lecithin at 24 degrees C and calculations from these data suggest that the reason for this may be the presence of a "free water layer" when more than 16% water is present.