THE SPATIAL DISTRIBUTION AND MOMENTS OF CIRCULAR FREELY JOINTED CHAIN

The spatial distribution function and second moments of circular freely jointed chain are derived based on an analytical method. The circular Gauss chain, which is simple for long chains, is compared with the circular freely jointed chain, which is exact for short chains. It is shown that the Gauss chain model predicts a more compact configurational distribution than the exact freely jointed chain. The two chain models, however, become closer to each other when the chain length increases. It is found that the difference of the mean square radius of gyration calculated with these two chain models is a constant, independent of the chain length.     

准圆周薄层色谱上行展开的研究

圆周薄层色谱能将样品展开为很细的谱线,具有较高的分辨能力,常用于分析一些难分离的物质。这种色谱方法过去只能采用水平展开方法。我们将普通薄层板修饰成特定形状,用最常见的上行展开法获得近似于圆周薄层的色谱。方法不需要特殊展开装置,应用于皂苷、生物碱的分离鉴定取得很好效果。     

FLUORESCENCE AND CIRCULAR DICHROISM STUDIES ON THE PHYCOERYTHROCYANINS FROM THE CYANOBACTERIUM

Two phycoerythrocyanin (PEC) fractions have been obtained from the phycobilisomes of the cyanobac-terium Westiellopsis prolifica ARM 365. They have been characterized by absorption, fluorescence and circular dichroism spectroscopy. One of them is spectroscopically similar to a PEC trimer known from other organisms. Whereas efficient energy transfer from its violin (α-84) to the cyanin (β-84, 155) chromophores is efficient in the trimer (αβ it is impeded after dissociation to the monomer (α,β). A second fraction of PEC which we earlier termed PEC(X) (Maruthi Sai et al., Photochem. Photobiol. 55 ,119–124, 1992), exhibited the spectral properties similar to that of the α-subunit of PEC from Mastigocladus laminosus. With this highly photoactive fraction, the circular dichroism spectra of the violobilin chromophore in both photoreversible states were obtained.     

THE ATTACHMENTS OF PHYCOBILINS TO CYSTEINYL RESIDUES

The attachments of phycobilins to cysteinyl residues have been worked out through the reactions of phycoerytbrobilin dimethyl ester and phycocyanobilin dimethyl ester with cysteine methyl ester and reduced glutathione dimethyl ester respectively. A series of model compounds which carry the same conjugative skeletons as the chromophores in phycobillproteins have been purified anti identified. These compounds are characterized with strong fluorescence emission and circular dichroism effects which appeared weaker for the common bilinoid chromophores. Analyses of the circular dichroism effects of these compounds indicated that the major reaction products of phycobilins with cysteine methyl ester and reduced glutathione dimethyl ester carried the same stereochemical configuration as the chromophores in phvcobilinoroteins     

SITE-DIRECTED MUTAGENESIS OF THE LH2 LIGHT-HARVESTING COMPLEX OF Rhodobacter sphaeroides: CHANGING βLys23 TO Gin RESULTS IN A SHIFT IN THE 850 nm ABSORPTION PEAK

The present study describes the construction of a Rhodobacter sphaeroides light-harvesting (LH2) mutant in which the charged residue βSLys23 is changed by site-directed mutagenesis to a Gin residue, and the characterization of the resulting mutant complex by a range of spectroscopic techniques. In the 77 K absorption spectrum of the mutant, the peak equivalent to the 850 nm peak in the wild-type membrane is blue-shifted by approximately 18 nm to 837 nm; except for this blue-shift, the 77 K. fluorescence excitation and emission spectra and the circular dichroism spectrum of the mutant are very similar to the equivalent spectra from the wild-type membranes, suggesting that the mutation βLys23 → Gin probably does not cause any major changes in the conformation or aggregation state of these membranes. Possible causes of the 18 nm blue-shift in the absorption spectrum are discussed.     

ORGANIZATION OF PIGMENT-PROTEIN COMPLEXES INTO MACRODOMAINS IN THE THYLAKOID MEMBRANES OF WILD-TYPE and CHLOROPHYLL fo-LESS MUTANT OF BARLEY AS REVEALED BY CIRCULAR DICHROISM

The organization of pigment-protein complexes into large chiral macrodomains was investigated in wild-type and chlorophyll b-less mutant thylakoid membranes of barley. The variations in the anomalous circular dichroism bands and in the angular-dependence of circular intensity differential scattering showed that in wild-type chloroplasts, the formation of macrodomains was governed by interactions of the light-harvesting chlorophyll alb complexes (LHCII). Two external factors could be identified which regulate the parameters of the anomalous circular dichroism signal: (i) electrostatic screening by divalent cations under conditions that favor membrane stacking and (ii) the osmotic pressure of the medium, which is suggested to affect the lateral interactions between complexes and influence the packing-density of particles. These two factors governed preferentially the negative and the positive anomalous circular dichroism signals, respectively. In the chlorina f-2 mutant thylakoid membranes, deficient in most chlorophyll b binding proteins, the formation of macrodomains which gave rise to the anomalous circular dichroism signals was still regulated by these same external factors. However, in the absence of major LHCII polypeptides the formation of macrodomains was apparently mediated by other complexes having weaker interaction capabilities. As a consequence, the size of the macrodomains under comparable conditions appeared smaller in the mutant than in the wild-type thylakoid membranes. Circular dichroism is a valuable probe for examining the long-range interactions between pigment-protein complexes which participate in the formation and stabilization of membrane ultrastruc-ture. A functional role of macrodomains in long-range energy migration processes is proposed.     

Photoacoustic detection of circular dichroism

An analysis is presented for an experimental technique involving the measurement of circular dichroism using polarization-modulated photoacoustic spectroscopy. The technique is referred to as photoacoustic circular dichroism (PACD). In the PACD experiment, a photoacoustic signal is induced by using polarization-modulated excitation light which is alternately left-and right-circularly polarized. Expression appropriate for analyzing the PACD experimental observables (signal strength and phase) in terms of sample circular dichroism are developed within the general framework of the Rosencwaig and Gersho model for the photoacoustic effect in solids and liquids. Calculations based on these expressions are reported and the applicability of PACD for measuring the circular dichronic properties of optically opaque samples is discussed.     

One sign ion mobile approximation

The electrical response of an electrolytic cell to an external excitation is discussed in the simple case where only one group of positive and negative ions is present. The particular case where the diffusion coefficients of the negative ions, D(m), is very small with respect to that of the positive ions, D(p), is considered. In this framework, it is discussed under what conditions the one mobile approximation, in which the negative ions are assumed fixed, works well. The analysis is performed by assuming that the external excitation is sinusoidal with circular frequency ω, as that used in the impedance spectroscopy technique. In this framework, we show that there exists a circular frequency, ω*, such that for ω > ω*, the one mobile ion approximation works well. We also show that for D(m) ? D(p), ω* is independent of D(m).     

Thermal Stabilization of an Endoglucanase by Cyclization

An intein-driven protein splicing approach allowed for the covalent linkage between the N- and C-termini of a polypeptide chain to create circular variants of the endo-??-1,3-1,4-glucanase, LicA, from Bacillus licheniformis. Two circular variants, LicA-C1 and LicA-C2, which have connecting loops of 20 and 14 amino acids, respectively, showed catalytic activities that are approximately two and three times higher, respectively, compared to that of the linear LicA (LicA-L1). The thermal stability of the circular variants was significantly increased compared to the linear form. Whereas the linear glucanase lost half of its activity after 3?min at 65?°C, the two circular variants have 6-fold (LicA-C1) and 16-fold (LicA-C2) increased half-life time of inactivation. In agreement with this, fluorescence spectroscopy and differential scanning calorimetry studies revealed that circular enzymes undergo structural changes at higher temperatures compared to that of the linear form. The effect of calcium on the conformational stability and function of the circular LicAs was also investigated, and we observed that the presence of calcium ions results in increased thermal stability. The impact of the length of the designed loops on thermal stability of the circular proteins is discussed, and it is suggested that cyclization may be an efficient strategy for the increased stability of proteins.     

CIRCULAR DICHROISM OF THE PHYTOCHROME CHROMOPHORES IN NATIVE AND DENATURED STATE

Abstract— The circular dichroism spectra of oat phytochrome were recorded. Qualitatively, the same spectra were found for large (360 kilodaltons) and small (60 kilodaltons) phytochrome. Quantitative CD data were reported for small P_r and P_fr (photoequilibrium mixture with 20% P_r) in tris buffer (native state) and in acid urea (denatured state). Further, the CD spectra of a phytochromobilinpeptide in acid solution with and without urea were recorded. Differences between the data in native and denatured state are discussed.     

Electrophoretic capture of circular DNA in gels

Results on electrophoretic capture of circular DNA in porous gels are reviewed. Processes which cause arrest of circular forms of DNA during electrophoresis can provide very efficient separation mechanism for the purification of plasmids and bacterial artificial chromosomes if the corresponding linear form is not trapped and therefore removed by the electric field. Two types of such topological traps have been proposed, impalement and lobster traps, and we here review the present experimental support for the existence of these two circle-specific mechanisms. Experiments designed to characterize the traps are discussed, regarding the concentration of the traps as well as their efficiency and capacity to trap both relaxed and supercoiled circular DNA. Studies of the dynamics of the capture process show that the average capture time is on the order of 10 s at 20 V/cm, by which time the circles have migrated several hundred micrometers and have passed hundreds of traps. We also review results on attempts to improve the capacity and efficiency of the trapping process by modification of the gels either by enzymatic treatment or by cogelation of neutral polymers.     

Electric circular dichroism

The theory of the circular dichroism induced by a static electric field is derived using quantum electrodynamics. Only terms linear in the electric field are considered, and molecular response is restricted to the dipole approximation. Selection rules and conditions under which the effect may be observed are discussed.     

THE ELECTROCHROMIC BEHAVIOUR OF LANTHANIDE BISPHTHALOCYANINES: THE ANOMALOUS NATURE OF THE GREEN LUTETIUM SPECIES

Abstract

Double integration of the electron paramagnetic resonance signal associated with the green form of lutetium bisphthalocyanine in dimethylformamide solution indicates it is a minor species. Magnetic circular dichroism spectroscopy strongly suggests the chromophore is not a radical. These findings are in keeping with the recently resurrected hypothesis [Daniels et al., J. Coord. Chem. (1993) 28, 23–31] that the “electrochromic” color changes observed in lanthanide bisphthalocyanine chemistry are acid-base in nature and not due to oxidation-reduction processes involving the phthalocyanine rings.     

Identification of circular codes in bacterial genomes and their use in a factorization method for retrieving the reading frames of genes

We developed a statistical method that allows each trinucleotide to be associated with a unique frame among the three possible ones in a (protein coding) gene. An extensive gene study in 175 complete bacterial genomes based on this statistical approach resulted in identification of 72 new circular codes. Finding a circular code enables an immediate retrieval of the reading frame locally anywhere in a gene. No knowledge of location of the start codon is required and a short window of only a few nucleotides is sufficient for automatic retrieval. We have therefore developed a factorization method (that explores previously found circular codes) for retrieving the reading frames of bacterial genes. Its principle is new and easy to understand. Neither complex treatment nor specific information on the nucleotide sequences is necessary. Moreover, the method can be used for short regions in nucleotide sequences (less than 25 nucleotides in protein coding genes). Selected additional properties of circular codes and their possible biological consequences are also discussed.     

Synchronized motion of a mobile boundary driven by a camphor fragment

The synchronized self-motion of a camphor fragment and a mobile boundary on a water surface depending on the initial conditions and the asymmetry of the boundary was investigated. When a camphor fragment, which showed unidirectional rotation, was surrounded by a circular ring as a symmetric mobile boundary on a water surface, the circular ring also rotated but in the direction opposite to that of the camphor fragment. The velocity of the rotation of the mobile ring varied depending on the anisotropy of the shape of the ring. When a camphor fragment was placed on the inside of a circular ring floating on the water surface, the ring and camphor fragment exhibited translational motion without rotation. These characteristics of synchronized self-motion are discussed in relation to the surface tension as the driving force and convective flow due to the gradient of the surface-active camphor layer.     

RESOLUTION OF THE INDIVIDUAL TRYPTOPHANYL CONTRIBUTIONS TO THE NEAR-ULTRAVIOLET DICHROIC ACTIVITY OF APOMYOGLOBIN

Abstract: The individual tryptophanyl contributions to the near-ultraviolet dichroic activity of apomyoglobin in its native conformation have been resolved. This was accomplished by comparing the spectra of two classes of apomyoglobin with different aromatic residue contents and observing the effect of a specific modification of indole residues. The circular dichroism (CD) spectra of apomyoglobins containing two tryptophanyl residues, i.e. Trp A-5 and A-12, show the presence of a positive peak centered at 292 nm, attributable to indolic chromophore, which is missing in the CD spectrum of tuna apomyoglobin possessing only Trp A-12. Moreover, the specific modification of Trp A-5 by 2-hydroxy-5-nitrobenzyl bromide is shown by the lack of the 292 nm peak and the appearance of a positive band at longer wavelength. The pH dependence of the position of this band suggests that it arises from the 2-hydroxy-5-nitrobenzyl moiety. The results suggest that Trp A-12 does not substantially contribute to the optical activity in the near ultraviolet.     

RESOLUTION OF THE INDIVIDUAL TRYPTOPHANYL CONTRIBUTIONS TO THE NEAR-ULTRAVIOLET DICHROIC ACTIVITY OF APOMYOGLOBIN

Abstract –The individual tryptophanyl contributions to the near-ultraviolet dichroic activity of apomyoglobin in its native conformation have been resolved. This was accomplished by comparing the spectra of two classes of apomyoglobin with different aromatic residue contents and observing the effect of a specific modification of indole residues. The circular dichroism (CD) spectra of apomyoglobins containing two tryptophanyl residues, i.e. Trp A-5 and A-12, show the presence of a positive peak centered at 292 nm, attributable to indolic chromophore, which is missing in the CD spectrum of tuna apomyoglobin possessing only Trp A-12. Moreover, the specific modification of Trp A-5 by 2-hydroxy-5-nitrobenzyl bromide is shown by the lack of the 292 nm peak and the appearance of a positive band at longer wavelength. The pH dependence of the position of this band suggests that it arises from the 2-hydroxy-5-nitrobenzyl moiety. The results suggest that Trp A-12 does not substantially contribute to the optical activity in the near ultraviolet.     

LINEAR AND CIRCULAR DICHROISM AND FLUORESCENCE POLARIZATION OF THE B875 LIGHT-HARVESTING BACTERIOCHLOROPHYLL-PROTEIN COMPLEX FROM RHODOPSEUDOMONAS SPHAEROIDES

Abstract— The orientation of the chromophores in the B875 light-harvesting bacteriochlorophyll complex isolated from Rhodopseudomonas sphaeroides by lithium dodecyl sulfate/polyacrylamide gel electrophoresis was examined by linear and circular dichroism and fluorescence polarization procedures. The circular dichroism in the near-IR was weaker than that of the B800–850 light-harvesting complex and had a distinctly different shape. This suggested a different geometry for the two bacteriochlorophylls of B875 and less interactive association between their transition moments. The magnitude of the circular dichroism in the carotenoid region of B875 was similar to that of B800–850 but gave more negative values between approx. 430–485 nm; this may reflect a difference in the asymmetric binding of carotenoids to the B875 protein. The fluorescence polarization increased sharply across the near-IR region of B875 and achieved very high values at long wavelengths. This confirmed that more than one transition contributed to this absorption band. The linear dichroism of B875 did not show a significant change in this near-IR band like that observed for the longest wavelength band of B800–850. Thus, the transition moments for each bacteriochlorophyll within B875 appear to be tilted to approximately the same extent with respect to the protein axis. These results distinguish B875 from all other light-harvesting complexes and suggest that the antennae of Rhodospirillaceae which contain a single near-IR absorption band cannot be classified into a single group.     

Nuclear‐Spin‐Induced Circular Dichroism in the Infrared Region for Liquids

Recently, the nuclear‐spin‐induced optical rotation (NSOR) and circular dichroism (NSCD) for liquids were discovered and extensively studied and developed. However, so far, nuclear‐spin‐induced magnetic circular dichroism in the IR region (IR‐NSCD) has not been explored, even though all polyatomic molecules exhibit extensive IR spectra. Herein, IR‐NSCD is proposed and discussed theoretically. The results indicate that in favorable conditions the IR‐NSCD angle may be much larger than the NSOR angle in the UV/Vis region due to a vibrational resonance effect and can be measurable by using the NSOR experiment scheme. IR‐NSCD can automatically combine and give NMR spectra and IRCD spectra of the nuclear spin prepolarized samples in liquids, which, in principle, could be developed to become a unique, novel analytical tool.     

STUDIES ON THE PROTEIN CONFORMATION OF PHYTOCHROME

Abstract— The extinction coefficients for large rye phytochrome were found to be: Fluorescence and circular dichroism spectra of large- and small-molecular-weight rye phytochrome give no evidence for a protein conformational change on phototransformation of phytochrome. The large molecule has a fluorescence emission peak at 331 nm when excited at 290 nm, and an excitation peak for this emission at 288 nm. The circular dichroism spectra indicate that large rye phytochrome has about 17–20% a-helix content, 30%β-structure and 50% random coil, and that the small rye phytochrome has about 10–13%α-helix content. The ultraviolet difference spectra for large and small rye phytochrome are similar and differ from the difference spectrum of the small oat phytochrome in the relative size of the 296–298 nm peak. The difference spectra may reflect changes in chromophore absorbance and in the environment of amino acid residues near the chromophore, particularly of tyrosine, and perhaps of tryptophan and cysteine.