SummaryBiliproteins are a widespread group of brilliantly coloured photoreceptors characterized by linear tetrapyrrolic chromophores, bilins, which are covalently bound to the apoproteins via relatively stable thioether bonds. Covalent binding stabilizes the chromoproteins and is mandatory for phycobilisome assembly; and, it is also important in biliprotein applications such as fluorescence labelling. Covalent binding has, on the other hand, also considerably hindered biliprotein research because autocatalytic chromophore additions are rare, and information on enzymatic addition by lyases was limited to a single example, an EF-type lyase attaching phycocyanobilin to cysteine-a84 of C-phycocyanin. The discovery of new activities for the latter lyases, and of new types of lyases, have reinvigorated research activities in the subject. So far, work has mainly concentrated on cyanobacterial phycobiliproteins. Methodological advances in the process, however, as well as the finding of often large numbers of homologues, opens new possibilities for research on the subsequent assembly/disassembly of the phycobilisome in cyanobacteria and red algae, on the assembly and organization of the cryptophyte light-harvesting system, on applications in basic research such as protein folding, and on the use of phycobiliproteins for labelling.

Cyanobacteriochromes are phytochrome homologues in cyanobacteria that act as sensory photoreceptors. We compare two cyanobacteriochromes, RGS (coded by slr1393) from Synechocystis sp. PCC 6803 and AphC (coded by all2699) from Nostoc sp. PCC 7120. Both contain three GAF (cGMP phosphodiesterase, adenylyl cyclase and FhlA protein) domains (GAF1, GAF2 and GAF3). The respective full-length, truncated and cysteine point-mutated genes were expressed in Escherichia coli together with genes for chromophore biosynthesis. The resulting chromoproteins were analyzed by UV-visible absorption, fluorescence and circular dichroism spectroscopy as well as by mass spectrometry. RGS shows a red-green photochromism (k max = 650 and 535 nm) that is assigned to the reversible 15Z ⁄ E isomerization of a single phycocyanobilin-chromophore (PCB) binding to Cys528 of GAF3. Of the three GAF domains, only GAF3 binds a chromophore and the binding is autocatalytic. RGS autophosphorylates in vitro; this reaction is photoregulated: the 535 nm state containing E-PCB was more active than the 650 nm state containing Z-PCB. AphC from Nostoc could be chromophorylated at two GAF domains, namely GAF1 and GAF3. PCB-GAF1 is photochromic, with the proposed 15E state (k max = 685 nm) reverting slowly thermally to the thermostable 15Z state (k max = 635 nm). PCB-GAF3 showed a novel red-orange photochromism; the unstable state (putative 15E, k max = 595 nm) reverts very rapidly (s 20 s) back to the thermostable Z state (k max = 645 nm). The photochemistry of doubly chromophorylated AphC is accordingly complex, as is the autophosphorylation: E-GAF1 ⁄ E-GAF3 shows the highest rate of autophosphorylation activity, while E-GAF1 ⁄ Z-GAF3 has intermediate activity, and Z-GAF1 ⁄ Z-GAF3 is the least active state. Structured digital abstractl AphC phosphorylates AphC by protein kinase assay (View interaction) l RGS phosphorylates RGS by protein kinase assay (View interaction) Abbreviations AphC, protein encoded by aphC = all2699; CBR, cyanobacteriochrome; GAF, cGMP phosphodiesterase, adenylyl cyclase and FhlA protein domain (SMART acc. no. SM00065); KPB, potassium phosphate buffer; Nostoc, Anabaena (Nostoc) sp. PCC 7120; P XXX ⁄ P YYY , the two photoconvertible states of CBR or Phy designated by the absorption maxima, with the stable generally 15Z state (k max = XXX nm) preceding the light-activated generally 15E-configured state (k max = YYY nm); PAS, period circadian protein, Ah receptor nuclear translocator protein and single-minded protein domain (SMART acc. no. SM00091); PCB, phycocyanobilin; Phy, phytochrome; PVB, phycoviolobilin; PFB, phytochromobilin; RGS, red-green switchable protein encoded by rgs = slr1393; Synechocystis, Synechocystis sp. PCC 6803.

Phycobilisomes, the light-harvesting complexes of cyanobacteria and red algae, contain two to four types of chromophores that are attached covalently to seven or more members of a family of homologous proteins, each carrying one to four binding sites. Chromophore binding to apoproteins is catalyzed by lyases, of which only few have been characterized in detail. The situation is complicated by nonenzymatic background binding to some apoproteins. Using a modular multiplasmidic expression-reconstitution assay in Escherichia coli with low background binding, phycobilin:cystein-84 biliprotein lyase (CpeS1) from Anabaena PCC7120, has been characterized as a nearly universal lyase for the cysteine-84-binding site that is conserved in all biliproteins. It catalyzes covalent attachment of phycocyanobilin to all allophycocyanin subunits and to cysteine-84 in the ␤-subunits of C-phycocyanin and phycoerythrocyanin. Together with the known lyases, it can thereby account for chromophore binding to all binding sites of the phycobiliproteins of Anabaena PCC7120. Moreover, it catalyzes the attachment of phycoerythrobilin to cysteine-84 of both subunits of C-phycoerythrin. The only exceptions not served by CpeS1 among the cysteine-84 sites are the ␣-subunits from phycocyanin and phycoerythrocyanin, which, by sequence analyses, have been defined as members of a subclass that is served by the more specialized E/F type lyases.biliprotein biosynthesis ͉ light-harvesting ͉ photosynthesis ͉ phycobilisome P hycobilisomes, the extramembraneous light-harvesting antennas in cyanobacteria and red algae, use four different types of linear tetrapyrrole chromophores to harvest light in the green gap of chlorophyll absorption (1-6). These phycobilins are covalently bound to seven or more proteins, each carrying one to four binding sites. The chromophores are biosynthesized from the cyclic irontetrapyrrole, heme, by ring opening at C-5, followed by reduction and, sometimes, also by isomerization (7-9). In the last step, these phycobilins are covalently attached to cysteines of the apoprotein via a thioether bond to C-3 1 on ring A ( Fig. 1) and in some cases by an additional thioether bond to C-18 1 on ring D (6, 10-12). This step, the binding to the apoprotein, is presently only poorly understood; it involves a considerable number of binding sites and chromophores, as well as the proper regulation and coordination of events. ¶ An increasing number of lyases has recently been identified that catalyze the chromophore addition and are specific not only for the chromophore but also for the apoprotein and the binding site (12-16). Based on the capacity of several of the respective apoproteins to also bind the chromophores autocatalytically (17-21), a chaperone-like function has been suggested (12). It enhances and guides the autocatalytic binding, which is generally of low fidelity, possibly by conformational control of the chromophore (18). At the same time, this autocatalytic binding interferes with the lyase analyses (22). The situation is some...

Fluorescent and photoswitchable proteins are invaluable in life sciences and considered for applications in data storage. Of particular interest for in vivo studies are fluorescent proteins whose chromophores are generated autocatalytically from the amino acid chain; [1] some of them can also be switched between two states. [2,3] Alternatively, apoproteins can be used that spontaneously incorporate endogenous chromophores like retinal. [4,5] The open-chain tetrapyrrole chromophore of biliproteins is subject to remarkable excited-state control of the chromophore by the apoprotein. [6][7][8] Absorption and fluorescence of free bilins like the phycocyanobilin (PCB) is strongly increased in native biliproteins: the maximum can be shifted by over 100 nm, and a photochemical reaction path is opened in photochromic biliproteins like phytochromes [9] and cyano-(bacterio)chromes. [7] These natural variations and the possibility to modulate the photophysical properties render biliproteins, in principle, excellent biomarkers and photonic materials.Applications have been limited, however, because the bilin chromophores must be provided separately and then attached covalently to the apoproteins. Previously, genes of the apoprotein were co-expressed with genes whose products generate the bilin chromophore from endogenous heme and then attach it covalently to the apoprotein. [10][11][12] We now report an alternative approach that generates various biliproteins in situ from a single, multifunctional gene and endogenous heme. This approach is demonstrated by the synthesis of two persistently red-fluorescent biliproteins based on allophycocyanins, and by photochromic biliproteins derived from a novel cyanobacteriochrome that can be reversibly switched from a state absorbing and strongly fluorescing in the red, to a spectroscopically well-separated, less fluorescent state absorbing in the green spectral region.Gene slr1393 of the cyanobacterium Synechocystis sp. PCC6803 encodes a red-green photoreversible cyanobacteriochrome. The full-length protein contains three GAF domains, but GAF3 (aa 441-596) alone is capable of autocatalytically binding PCB to cysteine-528.[21] Addition of PCB to GA results in a reversibly photochromic chromoprotein, termed RGS (red-green switchable protein): state P r (l max = 650 nm) is strongly fluorescent (F F = 0.06); it is reversibly converted by irradiation with red light into state P g (l max = 539 nm), which has reduced and strongly blueshifted fluorescence (Table 1, Figure 1 a). Photoswitching can be repeated many times; it is stable over a wide pH range, and is retained after RGS is embedded into polyvinyl alcohol (PVA) film (see Figures S1 and S2 in the Supporting Information).Chromophorylated RGS can be produced in E. coli [11,13] that has been multiply transformed to produce the GAF3 apoprotein and two biosynthetic enzymes generating PCB from heme, that is, heme oxygenase (HO1) and the biliverdin reductase (PcyA). The cells show an intense red fluorescence that can be abolished by irradiation w...