Biliprotein

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Crystal structure of B-phycoerythrin, a type of phycobiliprotein B-phycoerythrin 3V57.png
Crystal structure of B-phycoerythrin, a type of phycobiliprotein

Biliproteins are pigment protein compounds that are located in photosynthesising organisms such as algae, and sometimes also in certain insects. They refer to any protein that contains a bilin chromophore. In plants and algae, the main function of biliproteins is to make the process of light accumulation required for photosynthesis more efficient; while in insects they play a role in growth and development. Some of their properties: including light-receptivity, light-harvesting and fluorescence have made them suitable for applications in bioimaging and as indicators; while other properties such as anti-oxidation, anti-aging and anti-inflammation in phycobiliproteins have given them potential for use in medicine, cosmetics and food technology. While research on biliproteins dates back as far as 1950, [1] it was hindered due to issues regarding biliprotein structure, lack of methods available for isolating individual biliprotein components, as well as limited information on lyase reactions (which are needed to join proteins with their chromophores). Research on biliproteins has also been primarily focused on phycobiliproteins; but advances in technology and methodology, along with the discovery of different types of lyases, has renewed interest in biliprotein research, allowing new opportunities for investigating biliprotein processes such as assembly/disassembly and protein folding. [2]

Contents

Functions

In plants and algae

Biliproteins found in plants and algae serve as a system of pigments whose purpose is to detect and absorb light needed for photosynthesis.  The absorption spectra of biliproteins complements that of other photosynthetic pigments such as chlorophyll or carotene. [3]  The pigments detect and absorb energy from sunlight; the energy later being transferred to chlorophyll via internal energy transfer. [4] According to a 2002 article written by Takashi Hirata et al., the chromophores of certain phycobiliproteins are responsible for antioxidant activities in these biliproteins, and phycocyanin also possesses anti-inflammatory qualities due to its inhibitory apoprotein. When induced by both collagen and adenosine triphosphate (ADP), the chromophore phycocyanobilin suppresses platelet aggregation in phycocyanin, its corresponding phycobiliprotein. [5]

In insects

In insects, biliprotein lipocalins generally function to facilitate the changing of colours during camouflage, but other roles of biliproteins in insects have also been found. Functions such as preventing cellular damage, regulating guanylyl cyclase with biliverdin, among other roles associated with metabolic maintenance, have been hypothesised but yet to be proven. In the tobacco hornworm, the biliprotein insecticyanin (INS) was found to play a crucial part in embryonic development, as the absorption of INS into the moth eggs was observed. [6]

Structure

Chemical structure of a phycocyanobilin molecule (characterised by tetrapyrrole rings); the bilin chromophore of the phycocyanin biliprotein Phycocyanobilin.svg
Chemical structure of a phycocyanobilin molecule (characterised by tetrapyrrole rings); the bilin chromophore of the phycocyanin biliprotein
A phycobilisome made up by stacks of phycobiliprotein subunits attached together. Phycobilisome structure.jpg
A phycobilisome made up by stacks of phycobiliprotein subunits attached together.

The structure of biliproteins is typically characterised by bilin chromophores arranged in linear tetrapyrrolic formation, and the bilins are covalently bound to apoproteins via thioether bonds. [2] Each type of biliprotein has a unique bilin that belongs to it (e.g. phycoerythrobilin is the chromophore of phycoerythrin and phycocyanobilin is the chromophore of phycocyanin). The bilin chromophores are formed by the oxidative cleavage of a haem ring and catalysed by haem oxygenases at one of four methine bridges, allowing four possible bilin isomers to occur. In all organisms known to have biliproteins, cleavage usually occurs at the α-bridge, generating biliverdin IXα. [7]

Phycobiliproteins are grouped together in separate clusters, approximately 40nm in diameter, known as phycobilisomes. [3] The structural changes involved in deriving bilins from their biliverdin IXα isomer determine the spectral range of light absorption. [7]

The structure of biliproteins in insects differ slightly than those in plants and algae; they have a crystal structure and their chromophores are not covalently bound to the apoproteins. [8] Unlike phycobiliproteins whose chromophores are held in an extended arrangement by specific interactions between chromophores and proteins, the chromophore in insect biliproteins has a cyclic helical crystal structure in the protein-bound state, as found in studies of the biliprotein extracted from the large white butterfly. [9]

Classes of biliproteins

Phycobiliproteins

Phycobiliproteins are found in cyanobacteria (also known as blue-green algae) and algae groups such as rhodophyta (red algae) and cryptophytes. [10] Major phycobiliproteins include variations of phycocyanin (blue-pigment), variations of phycoerythrin (red pigment), and allophycocyanin (light-blue pigment); each of them possessing different spectral properties.  These water-soluble biliproteins are not essential for the functioning of cells. Some special qualities of phycobiliproteins include antioxidant properties and high fluorescence, and it is their chromophores that give these proteins their strong pigment. [5] [11] Phycobiliproteins are classified into two categories based on their amino-terminal sequences: "α-type" and "β-type" sequences. In biliproteins where the number of bilins on the two subunits is unequal, the subunit with more bilins has a β-type amino sequence. [12]

Phycochromes

Phycochromes are a subclass of phycobiliprotein that was initially recognised only as light sensory pigments in cyanobacteria. They are now deemed to constitute of all possible photoreversibly photochromic pigments, regardless of function. They are also found in red algae. [10] [13] In a series of journal articles written by G.S. and L.O. Björn, it was reported that phycochromes a, b, c and d were discovered by scientists who fractionated samples of blue-green algae using electrofocusing. The fractions with isoelectric points at or around 4.6 seemed analogous to phytochromes in that they possessed photochromic properties, yet were sensitive to light of shorter wavelengths. All four phycochromes except phycochrome c were extracted from the blue-green algae Tolypothrix distorta; whereas phycochrome a was also found in Phormidium luridum, Nostoc muscorum 1453/12 and Anacystis nidulans; and phycochrome c was extracted from Nostoc muscorum A and Tolypothrix tenuis. [14] [15]

Phytochromes

Phytochromes (also known as phys) were initially discovered in green plants in 1945. The photoreversible pigment was later found in fungi, mosses, and other algae groups due to the development of whole-genome sequencing, as explained in Peter H. Quail's 2010 journal article Phytochromes. [16]  As described in Hugo Scheer's 1981 journal article Biliproteins, phytochromes function as a sensor of light intensity in ‘high-energy’ reactions, i.e. in higher plants (e.g. underground seedlings), during transformation of heterotrophic blanching growth to autotrophic photosynthetic growth. [10] They carry out this function by monitoring the various parameters of light signals (such as presence/absence, colour, intensity and photoperiodicity). This information is then transduced via intracellular signaling pathways that trigger responses specific to the organism and its development state on both cellular and molecular levels, as explained by Quail. Phytochromes are also responsible for regulating many aspects of a plant's growth, development and reproduction throughout its lifecycle. [16]

Lipocalins (Insect biliproteins)

The large white butterfly (Pieris brassicae), from which the biliprotein known as 'bilin-binding protein' was extracted. Pieris brassicae - lt.jpeg
The large white butterfly (Pieris brassicae), from which the biliprotein known as 'bilin-binding protein' was extracted.

The lipocalins that have been identified as biliproteins have been found in a wide variety of insects, but mainly in the order Lepidoptera. Scientists have discovered them in the large white butterfly and a number of moth and silkmoth species, including the ailanthus and domestic silkmoths, giant silkworm moth, tobacco hawk moth, honeycomb moth, and the puss moth. [6] [8] The biliproteins associated with these insect species are the bilin-binding proteins, biliverdin-binding proteins, bombyrin, lipocalins 1 and 4, insecticyanin, gallerin and CV-bilin respectively. [6] [7] The biliproteins found in the tobacco hawk moth and pussmoth make up a major part of the insects’ haemolymph fluids.

The biliproteins that have been found in other insect orders apart from Lepidoptera still have unknown sequences, and so their lipocalin nature is still open. [6]

Comparison of biliproteins from different organisms

In a 1988 study conducted by Hugo Scheer and Harmut Kayser, biliproteins were extracted from the large white butterfly and puss moth and their respective properties were examined.  Their properties were compared to those of plant and algae biliproteins, and their distinguishing features were taken into account.[ citation needed ]

Unlile plant and algae biliproteins whose bilins are generally only derived from the IXα biliverdin isomer, the bilins of insect biliproteins are also derived from the IXγ isomer, which is almost exclusively found in Lepidoptera. [7] The study cited from M. Bois-Choussy and M. Barbier that these IXγ-series bile pigments are derived from cleavage of the porphyrin precursors at the C-15 (formerly γ) methine bridge, which is uncharacteristic of other mammalian and plant biliproteins. When the scientists examined biliproteins from both the large white butterfly and puss moth, they found that their polypeptides had a low α-helix content in comparison to phycobiliproteins. [8]

It was hypothesised that the role of biliproteins in insects would also have a role related to light-absorption similar to that in plant and algae biliproteins. However, when the photochemical properties required for light-absorption were found absent in the biliprotein of the large white butterfly, this hypothesis was eliminated, followed by the assumption that those photochemical properties also do not occur in any other insect biliproteins. [6]

Based on these examinations, it was concluded that insect biliproteins are only loosely related to those from plants and algae, due to the large number of differences they have regarding structure, chemical composition, derivation of bilins and general functions. [8]

Applications

Bioimaging

Fluorescent proteins have had a substantial impact on bioimaging, which is why biliproteins have made suitable candidates for the application, due to their properties of fluorescence, light-harvesting, light-sensitivity and photoswitching (the latter occurring only in phytochromes). Phycobiliproteins, which are highly fluorescent, have been used in external applications of bioimaging since the early 1980s. That application requires the bilin chromophore to be synthesised from haem, after which a lyase is needed to covalently bond the bilin to its corresponding apoprotein. An alternative method of uses phytochromes instead; some phytochromes only require one enzyme, haem oxygenase, for synthesising chromophores. Another benefit of using phytochromes is that they bind to their bilins autocatalytically. While there are photochromic pigments with poor fluorescence, this problem has been alleviated by engineering protein variants that reduce photochemistry and enhance fluorescence. [17]

Food, medicine and cosmetics

Properties of phycobiliproteins, such as their natural antioxidant, anti-inflammatory, food colourant, strong pigment and anti-aging activities, have given them considerable potential for use in food, cosmetics and medicinal applications. They have also proven to be therapeutic in treating diseases such as Alzheimer's disease and cancer. Given their large range of applications and potential uses, researchers have been trying to find and develop ways to produce and purify phycobiliproteins to meet the growing demand for them. [18] One such phycobiliprotein is C-phycocyanin (C-PC), which is found in spirulina. A limiting factor of C-PC's usage in these applications is its protein stability, given that in its natural form, C-PC is highly sensitive to light and heat when in aqueous solution, due to its photosensitive phycocyanobilin (PCB) chromophore, which also makes it prone to free-radical oxidation. Like other natural food colourants, C-PC is also sensitive to acidic conditions and oxidant exposure. This has prompted studies to develop methods of stabilising C-PC/PCB and expand their applications to other food systems. [19]

More details on the applications of phycocyanin in food and medicine can be found here.[ citation needed ]

Indicator of drinking water quality

The fluorescence signals emitted from phycoerythrin and phycocyanin have made them suitable for use as indicators to detect cyanotoxins such as microcystins in drinking water. A study examined the nature of the biliproteins' fluorescence signals regarding their real-time character, sensitivity and the biliproteins' behaviour in different treatment stages (of water) in comparison to microcystins. The fluorescence signals' real-time character was confirmed by fluorescence measurements, as they can be carried out without having to pre-concentrate the biliproteins. If the ratio of biliprotein to microcystin is above 1, the fluorescence signals can estimate very low concentrations of microcystins. A test conducted in 2009 compared the behaviour of both biliproteins and selected microcystins MC-LR and MC-RR during water treatment. The test results showed that the biliproteins have an early warning function against microcystins in conventional treatment stages that use pre-oxidation with permanganate, activated carbon and chlorination. However, the early warning function does not occur when chlorine dioxide is used as a pre-oxidant or final disinfectant. It is important for the biliprotein/toxin ratio of raw water to be known in order to use the biliproteins for control measurements in drinking water treatment. [20]

See also

Related Research Articles

<span class="mw-page-title-main">Green fluorescent protein</span> Protein that exhibits bright green fluorescence when exposed to ultraviolet light

The green fluorescent protein (GFP) is a protein that exhibits green fluorescence when exposed to light in the blue to ultraviolet range. The label GFP traditionally refers to the protein first isolated from the jellyfish Aequorea victoria and is sometimes called avGFP. However, GFPs have been found in other organisms including corals, sea anemones, zoanithids, copepods and lancelets.

Phycobilins are light-capturing bilins found in cyanobacteria and in the chloroplasts of red algae, glaucophytes and some cryptomonads. Most of their molecules consist of a chromophore which makes them coloured. They are unique among the photosynthetic pigments in that they are bonded to certain water-soluble proteins, known as phycobiliproteins. Phycobiliproteins then pass the light energy to chlorophylls for photosynthesis.

<span class="mw-page-title-main">Phytochrome</span> Protein used by plants, bacteria and fungi to detect light

Phytochromes are a class of photoreceptor proteins found in plants, bacteria and fungi. They respond to light in the red and far-red regions of the visible spectrum and can be classed as either Type I, which are activated by far-red light, or Type II that are activated by red light. Recent advances have suggested that phytochromes also act as temperature sensors, as warmer temperatures enhance their de-activation. All of these factors contribute to the plant's ability to germinate.

Phycoerythrin (PE) is a red protein-pigment complex from the light-harvesting phycobiliprotein family, present in cyanobacteria, red algae and cryptophytes, accessory to the main chlorophyll pigments responsible for photosynthesis.The red pigment is due to the prosthetic group, phycoerythrobilin, which gives phycoerythrin its red color.

Photopigments are unstable pigments that undergo a chemical change when they absorb light. The term is generally applied to the non-protein chromophore moiety of photosensitive chromoproteins, such as the pigments involved in photosynthesis and photoreception. In medical terminology, "photopigment" commonly refers to the photoreceptor proteins of the retina.

In developmental biology, photomorphogenesis is light-mediated development, where plant growth patterns respond to the light spectrum. This is a completely separate process from photosynthesis where light is used as a source of energy. Phytochromes, cryptochromes, and phototropins are photochromic sensory receptors that restrict the photomorphogenic effect of light to the UV-A, UV-B, blue, and red portions of the electromagnetic spectrum.

<span class="mw-page-title-main">Biliverdin</span> Green bile pigment

Biliverdin is a green tetrapyrrolic bile pigment, and is a product of heme catabolism. It is the pigment responsible for a greenish color sometimes seen in bruises.

Accessory pigments are light-absorbing compounds, found in photosynthetic organisms, that work in conjunction with chlorophyll a. They include other forms of this pigment, such as chlorophyll b in green algal and vascular ("higher") plant antennae, while other algae may contain chlorophyll c or d. In addition, there are many non-chlorophyll accessory pigments, such as carotenoids or phycobiliproteins, which also absorb light and transfer that light energy to photosystem chlorophyll. Some of these accessory pigments, in particular the carotenoids, also serve to absorb and dissipate excess light energy, or work as antioxidants. The large, physically associated group of chlorophylls and other accessory pigments is sometimes referred to as a pigment bed.

<span class="mw-page-title-main">Phycocyanin</span> Protein complexes in algae

Phycocyanin is a pigment-protein complex from the light-harvesting phycobiliprotein family, along with allophycocyanin and phycoerythrin. It is an accessory pigment to chlorophyll. All phycobiliproteins are water-soluble, so they cannot exist within the membrane like carotenoids can. Instead, phycobiliproteins aggregate to form clusters that adhere to the membrane called phycobilisomes. Phycocyanin is a characteristic light blue color, absorbing orange and red light, particularly 620 nm, and emits fluorescence at about 650 nm. Allophycocyanin absorbs and emits at longer wavelengths than phycocyanin C or phycocyanin R. Phycocyanins are found in cyanobacteria. Phycobiliproteins have fluorescent properties that are used in immunoassay kits. Phycocyanin is from the Greek phyco meaning “algae” and cyanin is from the English word “cyan", which conventionally means a shade of blue-green and is derived from the Greek “kyanos" which means a somewhat different color: "dark blue". The product phycocyanin, produced by Aphanizomenon flos-aquae and Spirulina, is for example used in the food and beverage industry as the natural coloring agent 'Lina Blue' or 'EXBERRY Shade Blue' and is found in sweets and ice cream. In addition, fluorescence detection of phycocyanin pigments in water samples is a useful method to monitor cyanobacteria biomass.

<span class="mw-page-title-main">Phycobilisome</span> Light-energy harvesting structure in cyanobacteria and red algae

Phycobilisomes are light-harvesting antennae that transmit the energy of harvested photons to photosystem II and photosystem I in cyanobacteria and in the chloroplasts of red algae and glaucophytes. They were lost during the evolution of the chloroplasts of green algae and plants.

<span class="mw-page-title-main">Allophycocyanin</span>

Allophycocyanin is a protein from the light-harvesting phycobiliprotein family, along with phycocyanin, phycoerythrin and phycoerythrocyanin. It is an accessory pigment to chlorophyll. All phycobiliproteins are water-soluble and therefore cannot exist within the membrane like carotenoids, but aggregate, forming clusters that adhere to the membrane called phycobilisomes. Allophycocyanin absorbs and emits red light, and is readily found in Cyanobacteria, and red algae. Phycobilin pigments have fluorescent properties that are used in immunoassay kits. In flow cytometry, it is often abbreviated APC. To be effectively used in applications such as FACS, High-Throughput Screening (HTS) and microscopy, APC needs to be chemically cross-linked.

<span class="mw-page-title-main">Phycobiliprotein</span>

Phycobiliproteins are water-soluble proteins present in cyanobacteria and certain algae. They capture light energy, which is then passed on to chlorophylls during photosynthesis. Phycobiliproteins are formed of a complex between proteins and covalently bound phycobilins that act as chromophores. They are most important constituents of the phycobilisomes.

A light-harvesting complex consists of a number of chromophores which are complex subunit proteins that may be part of a larger super complex of a photosystem, the functional unit in photosynthesis. It is used by plants and photosynthetic bacteria to collect more of the incoming light than would be captured by the photosynthetic reaction center alone. The light which is captured by the chromophores is capable of exciting molecules from their ground state to a higher energy state, known as the excited state. This excited state does not last very long and is known to be short-lived.

<span class="mw-page-title-main">Bilin (biochemistry)</span> Class of chemical compound

Bilins, bilanes or bile pigments are biological pigments formed in many organisms as a metabolic product of certain porphyrins. Bilin was named as a bile pigment of mammals, but can also be found in lower vertebrates, invertebrates, as well as red algae, green plants and cyanobacteria. Bilins can range in color from red, orange, yellow or brown to blue or green.

Photoreceptor proteins are light-sensitive proteins involved in the sensing and response to light in a variety of organisms. Some examples are rhodopsin in the photoreceptor cells of the vertebrate retina, phytochrome in plants, and bacteriorhodopsin and bacteriophytochromes in some bacteria. They mediate light responses as varied as visual perception, phototropism and phototaxis, as well as responses to light-dark cycles such as circadian rhythm and other photoperiodisms including control of flowering times in plants and mating seasons in animals.

Phycoerythrocyanin is a kind of phycobiliprotein, magenta chromoprotein involved in photosynthesis of some Cyanobacteria. This chromoprotein consists of alpha- and beta-subunits, generally aggregated as hexamer. Alpha-phycoerythrocyanin contains a phycoviolobilin, a violet bilin, that covalently attached at Cys-84, and beta-phycoerythrocyanin contains two phycocyanobilins, a blue bilin, that covalently attached at Cys-84 and -155, respectively. Phycoerythrocyanin is similar to phycocyanin, an important component of the light-harvesting complex (phycobilisome) of cyanobacteria and red algae.

<span class="mw-page-title-main">Phycocyanobilin</span> Chemical compound

Phycocyanobilin is a blue phycobilin, i.e., a tetrapyrrole chromophore found in cyanobacteria and in the chloroplasts of red algae, glaucophytes, and some cryptomonads. Phycocyanobilin is present only in the phycobiliproteins allophycocyanin and phycocyanin, of which it is the terminal acceptor of energy. It is covalently linked to these phycobiliproteins by a thioether bond.

In enzymology, a phycocyanobilin:ferredoxin oxidoreductase is an enzyme that catalyzes the chemical reaction

<span class="mw-page-title-main">SmURFP</span>

Small ultra red fluorescent protein (smURFP) is a class of far-red fluorescent protein evolved from a cyanobacterial phycobiliprotein, α-allophycocyanin. Native α-allophycocyanin requires an exogenous protein, known as a lyase, to attach the chromophore, phycocyanobilin. Phycocyanobilin is not present in mammalian cells. smURFP was evolved to covalently attach phycocyanobilin without a lyase and fluoresce, covalently attach biliverdin and fluoresce, blue-shift fluorescence to match the organic fluorophore, Cy5, and not inhibit E. coli growth. smURFP was found after 12 rounds of random mutagenesis and manually screening 10,000,000 bacterial colonies.

Alexander Glazer was a professor of the Graduate School in the Department of Molecular and Cell Biology at the University of California, Berkeley. He had a passion for protein chemistry and structure function relationships. He also had a longstanding interest in light-harvesting complexes in cyanobacteria and red algae called phycobilisomes. He had also spent more than 10 years working on the human genome project where he has investigated methods for DNA detection and sequencing which most notably includes the development of fluorescent reagents involved in cell labeling. Most recently, he had focused his studies on issues in environmental sciences. He died on July 18, 2021, in Orinda, California

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Further reading