Studies of the blue astaxanthin-proteins of velella velella (coelenterata: chondrophora)

Velella velella is a surface living oceanic chondrophore exhibiting the typical blue pigmentation of the neuston. In the present study the properties of the blue astaxanthinproteins of the mantle tissue are reported. The pigments have been separated into four main fractions by gel filtration (V620, V600, V570 and V545) with λmax 620 nm, 600 nm, 570 nm and 545 nm, respectively, and their molecular sizes were estimated. Pigment V620 is a polymeric form, possibly a tetramer, of pigment V600. Analysis of the gradient elution profile of V600 in gel filtration at low chloride ion concentration provides evidence that the pigment is an octamer of V570-size units. Pigment V570 separates in preparative acrylamide electrophoresis into six components. Gel filtration, SDS-electrophoresis and phase-partition experiments show that these are dimers of apoprotein (V545-size) units of molecular mass ca. 2.3 x 10 4 . Estimates of minimum molecular mass based on astaxanthin content reveal that V620 and V600 have two astaxanthin prosthetic groups per apoprotein subunit. The pigments are simple proteins with free sulphydryl groups and negligible tyrosine contents. Pigments V620 and V600 possess specific anion-binding sites which have an influence on the visible and circular dichroism spectra, and on the quaternary structure of the pigments. In the absence of halide ions the pigments dissociate reversibly forming pigments with λmax 583 nm (V600-size) and λmax 565 nm (V570-size). The aniondependence of the spectra of the native pigments and of the components, V583 and V565, separated in halide-free gel filtration, have been investigated. Equations are derived linking the spectral changes and anion-dependent association processes to the anion concentration. The order of effectiveness of anions for the changes (Br - > I - > Cl - > NO - 3 , CNS - ) does not follow the Hofmeister series. The changes take place at low anion concentrations (10 -5 -10 -1 M) with a negative temperature dependence and are partially abolished by blocking lysine residues; higher anion concentrations are required to bring about alterations in the spectra of the separated components V583 and V565. The halide-dependent quaternary structural changes of the pigments have been followed in gel filtration on Bio-Gel columns equilibrated with phosphate buffer containing low concentrations of KGl. In order to explain the high affinity of the pigments for anions and the order of anion effectiveness, it is proposed that the anion-binding sites consist of clusters of basic residues which impose stereospecific restrictions on the anion binding. These sites are progressively lost in the absence of halide ions and following gel filtration of halide-free solutions of the pigments. 36 Chloride-binding measurements, using a gel filtration equilibrium technique, indicate that V600 may have three such sites per apoprotein subunit. The temperature dependence of chloride binding and of the spectral alterations of the pigment show that occupation of the sites causes relatively minor changes in the polypeptide conformations of the native pigment; surface spreading of the pigment revealed only a small increase in the stability of the tertiary and quaternary structure of the pigment in the presence of chloride ions. Pigment V570 and the apoprotein do not possess halide-ion binding sites of high affinity. The astaxanthin prosthetic groups of pigments V620 and V600 are optically active with large molar ellipticity values in the visible region; pigment V570 shows a low molar ellipticity value at the visible absorption maximum. The origin of the optical activity of the carotenoid in the complexes is discussed. Exciton splitting, attributed to carotenoid-carotenoid interaction, is observed in the circular dichroism (c.d.) spectrum of V620 but only in the presence of halide ions. It is suggested that occupation of the anion-binding sites of the pigment affects the relative orientation or distance apart of the chromophores. A comparison of the c.d. spectrum of the pigments in the far ultraviolet did not reveal any major alteration in protein conformation resulting from anion binding. The c.d. spectrum of V600 in the far ultraviolet and the amino acid composition of the pigment are consistent with a high contribution of β-structure to the configuration of the protein. Investigations into the specificity of carotenoid attachment have shown that although astaxanthin combines most efficiently with the apoprotein, other carotenoids, including acetylenic and cyclopentene derivatives, are able to effect quaternary structural changes of the protein. The carotenoid effects dimerization of the apoprotein in the presence of a 4-keto group in one ring and the presence in either ring of an additional hydrophilic substituent; dimerization of the apoprotein is also obtained with the half-carotenoid, 15-15'-dehydro-8'-apo-β-carotene-8'-al-3,4-dione. Both 4- and 4'-keto groups and additional hydrophilic substituents in the carotenoid structure are prerequisites for the further polymerization of the protein. Garotenoproteins showing chloride-dependent spectral shifts are obtained only with carotenoids containing a keto substituent in both rings.

1992 ◽  
Vol 72 (4) ◽  
pp. 1611-1615 ◽  
Author(s):  
R. E. Weber

The functional characteristics of hemoglobin (Hb) depend on oxygenation-linked proton and anion binding and thus on solvent buffer groups and ionic composition. This study compares the oxygenation properties of human Hb in ionic [tris(hydroxymethyl)aminomethane (Tris) and BisTris] buffers with those in zwitterionic N-2-hydroxy-ethylpiperazine-N′-2-ethanesulfonic acid (HEPES) buffer under strictly controlled chloride concentrations at different pH values, two temperatures, and in the absence and presence of the erythrocytic cofactor, 2,3-diphosphoglycerate (DPG). In contrast to earlier studies (carried out at the same or different chloride concentrations) it shows only small buffer effects that are manifested at low chloride concentration and high pH. These observations suggest chloride binding to the Tris buffers, which reduces the interaction with specific chloride binding sites in the Hb. The findings indicate that HEPES allows for more accurate assessment of Hb-oxygen affinity and its anion and temperature sensitivities than ionic buffers and advocates standard use of HEPES in studies on Hb function. Precise oxygen affinities of Hb dissolved in both buffers are defined under standard conditions.


1992 ◽  
Vol 284 (3) ◽  
pp. 905-910 ◽  
Author(s):  
A Corti ◽  
G Fassina ◽  
F Marcucci ◽  
E Barbanti ◽  
G Cassani

The stability of oligomeric human tumour necrasis factor alpha (TNF) at bioactive levels has been studied by two immunoenzymatic assays: one able to specifically detect oligomeric and not monomeric TNF (O-e.l.i.s.a.) and the other able to detect both forms (OM-e.l.i.s.a.). The selectivity of O-e.l.i.s.a. and OM-e.l.i.s.a. for oligomeric and monomeric TNF was demonstrated with isolated forms prepared by partial dissociation of recombinant TNF with 10% (v/v) dimethyl sulphoxide and gel-filtration h.p.l.c. Evidence for instability of oligomeric TNF were obtained in physiological buffers, as well as in serum and cell-culture supernatants, as a function of TNF concentration. In particular, only a half of the TNF antigen was recovered in the oligomeric form after 72 h incubation (37 degrees C) at 0.12 nM, whereas no apparent dissociation was detected at 4 nM. The structural changes observed at picomolar concentrations were rapidly reversed by raising the concentration of TNF to about 2 nM by ultrafiltration, suggesting that subunit dissociation and reassociation reactions occur in the picomolar and nanomolar range respectively. The cytolytic activity of L-M cells correlates with oligomeric-TNF levels after incubation at picomolar concentrations. Moreover, isolated oligomeric TNF was cytotoxic towards L-M cells, whereas monomeric TNF was virtually inactive. In conclusion, the results suggest that bioactive oligomeric TNF is unstable at picomolar levels and slowly converts into inactive monomers, supporting the hypothesis that quaternary-structure changes in TNF may contribute to the fine regulation of TNF cytotoxicity.


2021 ◽  
Vol 7 (1) ◽  
pp. 6
Author(s):  
Matthew C. Wang ◽  
Phillip J. McCown ◽  
Grace E. Schiefelbein ◽  
Jessica A. Brown

Long noncoding RNAs (lncRNAs) influence cellular function through binding events that often depend on the lncRNA secondary structure. One such lncRNA, metastasis-associated lung adenocarcinoma transcript 1 (MALAT1), is upregulated in many cancer types and has a myriad of protein- and miRNA-binding sites. Recently, a secondary structural model of MALAT1 in noncancerous cells was proposed to form 194 hairpins and 13 pseudoknots. That study postulated that, in cancer cells, the MALAT1 structure likely varies, thereby influencing cancer progression. This work analyzes how that structural model is expected to change in K562 cells, which originated from a patient with chronic myeloid leukemia (CML), and in HeLa cells, which originated from a patient with cervical cancer. Dimethyl sulfate-sequencing (DMS-Seq) data from K562 cells and psoralen analysis of RNA interactions and structure (PARIS) data from HeLa cells were compared to the working structural model of MALAT1 in noncancerous cells to identify sites that likely undergo structural alterations. MALAT1 in K562 cells is predicted to become more unstructured, with almost 60% of examined hairpins in noncancerous cells losing at least half of their base pairings. Conversely, MALAT1 in HeLa cells is predicted to largely maintain its structure, undergoing 18 novel structural rearrangements. Moreover, 50 validated miRNA-binding sites are affected by putative secondary structural changes in both cancer types, such as miR-217 in K562 cells and miR-20a in HeLa cells. Structural changes unique to K562 cells and HeLa cells provide new mechanistic leads into how the structure of MALAT1 may mediate cancer in a cell-type specific manner.


2015 ◽  
Vol 71 (11) ◽  
pp. 2236-2247 ◽  
Author(s):  
Cristiana M. Sousa ◽  
Philippe Carpentier ◽  
Pedro M. Matias ◽  
Fabrizio Testa ◽  
Filipa Pinho ◽  
...  

Superoxide reductase (SOR), which is commonly found in prokaryotic organisms, affords protection from oxidative stress by reducing the superoxide anion to hydrogen peroxide. The reaction is catalyzed at the iron centre, which is highly conserved among the prokaryotic SORs structurally characterized to date. Reported here is the first structure of an SOR from a eukaryotic organism, the protozoan parasiteGiardia intestinalis(GiSOR), which was solved at 2.0 Å resolution. By collecting several diffraction data sets at 100 K from the same flash-cooled protein crystal using synchrotron X-ray radiation, photoreduction of the iron centre was observed. Reduction was monitored using an online UV–visible microspectrophotometer, following the decay of the 647 nm absorption band characteristic of the iron site in the glutamate-bound, oxidized state. Similarly to other 1Fe-SORs structurally characterized to date, the enzyme displays a tetrameric quaternary-structure arrangement. As a distinctive feature, the N-terminal loop of the protein, containing the characteristic EKHxP motif, revealed an unusually high flexibility regardless of the iron redox state. At variance with previous evidence collected by X-ray crystallography and Fourier transform infrared spectroscopy of prokaryotic SORs, iron reduction did not lead to dissociation of glutamate from the catalytic metal or other structural changes; however, the glutamate ligand underwent X-ray-induced chemical changes, revealing high sensitivity of theGiSOR active site to X-ray radiation damage.


eLife ◽  
2021 ◽  
Vol 10 ◽  
Author(s):  
Benjamin C McIlwain ◽  
Roja Gundepudi ◽  
B Ben Koff ◽  
Randy B Stockbridge

Fluc family fluoride channels protect microbes against ambient environmental fluoride by undermining the cytoplasmic accumulation of this toxic halide. These proteins are structurally idiosyncratic, and thus the permeation pathway and mechanism have no analogy in other known ion channels. Although fluoride binding sites were identified in previous structural studies, it was not evident how these ions access aqueous solution, and the molecular determinants of anion recognition and selectivity have not been elucidated. Using x-ray crystallography, planar bilayer electrophysiology and liposome-based assays, we identify additional binding sites along the permeation pathway. We use this information to develop an oriented system for planar lipid bilayer electrophysiology and observe anion block at one of these sites, revealing insights into the mechanism of anion recognition. We propose a permeation mechanism involving alternating occupancy of anion binding sites that are fully assembled only as the substrate approaches.


Studies of anion transport across the red blood cell membrane fall generally into two categories: (1) those concerned with the operational characterization of the transport system, largely by kinetic analysis and inhibitor studies; and (2) those concerned with the structure of band 3, a transmembrane peptide identified as the transport protein. The kinetics are consistent with a ping-pong model in which positively charged anion-binding sites can alternate between exposure to the inside and outside compartments but can only shift one position to the other when occupied by an anion. The structural studies on band 3 indicate that only 60 % of the peptide is essential for transport. That particular portion is in the form of a dimer consisting of an assembly of membrane-crossing strands (each monomer appears to cross at least five times). The assembly presents its hydrophobic residues toward the interior of the bilayer, but its hydrophilic residues provide an aqueous core. The transport involves a small conformational change in which an anion-binding site (involving positively charged residues) can alternate between positions that are topologically in and topologically out.


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