Structure of the bacteriophage PhiKZ non-virion RNA polymerase.

Bacteriophage ΦKZ (PhiKZ) is the archetype of a family of massive bacterial viruses. It is considered to have therapeutic potential as its host, Pseudomonas aeruginosa, is an opportunistic, intrinsically antibiotic resistant, pathogen that kills tens of thousands worldwide each year. ΦKZ is an incredibly interesting virus, expressing many systems that the host already possesses. On infection, it forms a 'nucleus', erecting a barrier around its genome to exclude host endonucleases and CRISPR-Cas systems. ΦKZ infection is independent of the host transcriptional apparatus. It expresses two different multi-subunit RNA polymerases (RNAPs): the virion RNAP (vRNAP) is injected with the viral DNA during infection to transcribe early genes, including those encoding the non-virion RNAP (nvRNAP), which transcribes all further genes. ΦKZ nvRNAP is formed by four polypeptides thought to represent homologues of the eubacterial ß/ß' subunits, and a fifth with unclear homology, but essential for transcription. We have resolved the structure of ΦKZ nvRNAP to better than 3.0 Å, shedding light on its assembly, homology, and the biological role of the fifth subunit: it is an embedded, integral member of the complex, the position, structural homology and biochemical role of which imply that it has evolved from an ancestral homologue to σ-factor.

Binuclear Gold(I) Phosphine Alkynyl Complexes Templated on a Flexible Cyclic Phosphine Ligand: Synthesis and Some Features of Solid-State Luminescence.

A flexible bidentate cyclic phosphine, namely, 1,5-bis(p-tolyl)-3,7-bis(pyridin-2-yl)-1,5-diaza-3,7-diphosphacyclooctane (PNNP), was used as a template to construct a family of binuclear heteroleptic phosphine alkynyl complexes [PNNP(AuC2R)2], with R = Ph, C6H10OH, C5H8OH, (CH3)2COH, Ph2COH. All complexes obtained were characterized by CHN elemental analysis, NMR spectroscopy, and single-crystal X-ray analysis. It was found that the gold(I) complexes demonstrate a different organization of the crystal structure depending on the nature of the cocrystallized solvent (dichloromethane, acetone, and acetonitrile) because of formation of the supramolecular complexes through hydrogen bonding. These weak interactions appear to determine the conformation, packing, and spatial cooperation of flexible complex molecules that are reflected in the photophysical properties, which were carefully investigated in solution and in the solid state. The complexes demonstrate weak emission in solution at room temperature, and freezing results in blue shifting of the emission, which is accompanied by a significant increase in the luminescence intensity. Being isolated from dichloromethane, all gold(I) complexes exhibit green phosphorescence in the solid state, and the complexes with R = Ph and Ph2COH display substantial variation of their emission color after recrystallization from acetone and acetonitrile, respectively, which manifests itself as a significant bathochromic shift of up to 120 nm. The structural nonrigidity of the gold(I) complexes obtained and its impact on the properties of low-energy excited states were investigated in detail by density functional theory calculations, which indicate the significant role of the structural flexibility of the PNNP ligand in the formation of the low-energy excited states and confirm the impact of rotation of the functional groups in the coordination sphere on the emission properties of complexes.

Supramolecular Construction of Cyanide-Bridged ReI Diimine Multichromophores.

The reactions of labile [Re(diimine)(CO)3(H2O)]+ precursors (diimine = 2,2'-bipyridine, bpy; 1,10-phenanthroline, phen) with dicyanoargentate anion produce the dirhenium cyanide-bridged compounds [{Re(diimine)(CO)3}2CN)]+ (1 and 2). Substitution of the axial carbonyl ligands in 2 for triphenylphosphine gives the derivative [{Re(phen)(CO)2(PPh3)}2CN]+ (3), while the employment of a neutral metalloligand [Au(PPh3)(CN)] affords heterobimetallic complex [{Re(phen)(CO)3}NCAu(PPh3)]+ (4). Furthermore, the utilization of [Au(CN)2]-, [Pt(CN)4]2-, and [Fe(CN)6]4-/3- cyanometallates leads to the higher nuclearity aggregates [{Re(diimine)(CO)3NC} xM] m+ (M = Au, x = 2, 5 and 6; Pt, x = 4, 7 and 8; Fe, x = 6, 9 and 10). All novel compounds were characterized crystallographically. Assemblies 1-8 are phosphorescent both in solution and in the solid state; according to the DFT analysis, the optical properties are mainly associated with charge transfer from Re tricarbonyl motif to the diimine fragment. The energy of this process can be substantially modified by the properties of the ancillary ligands that allows to attain near-IR emission for 3 (λem = 737 nm in CH2Cl2). The Re-FeII/III complexes 9 and 10 are not luminescent but exhibit low energy absorptions, reaching 846 nm (10) due to ReI → FeIII transition.

Luminescence Thermochromism of Gold(I) Phosphane-Iodide Complexes: A Rule or an Exception?

A series of gold(I) iodide complexes 1-11 have been prepared from di-, tri-, and tetraphosphane ligands. Crystallographic studies reveal that the di- (1-7) and tetrametallic (11) compounds feature linearly coordinated gold(I) ions with short aurophilic contacts. Their luminescence behavior is determined by the combined influence of the phosphane properties, metal-metal interaction, and intermolecular lattice-defined interactions. The proposed variable contribution of 3 (X+M)-centered (X=halogen; M=metal) and 3 XLCT (halogen to ligand charge transfer) electronic transitions into the lowest lying excited state, which is influenced by supramolecular packing, is presumably responsible for the alteration of room-temperature emission color from green (λ=545 nm, for 11) to near-IR (λ=698 nm, for 2). Dinuclear compounds 6 and 7 exhibit distinct luminescence thermochromism with a blueshift up to 5750 cm-1 upon cooling. Such dramatic change of emission energy is assigned to the presence of two coupled triplet excited states of 3 ππ* and 3 (X+M)C/3 XLCT nature, the presence of which depends on both molecular structure and the crystal lattice arrangement.

Cyanide-Assembled d10 Coordination Polymers and Cycles: Excited State Metallophilic Modulation of Solid-State Luminescence.

The series of cyanide-bridged coordination polymers [(P2 )CuCN]n (1), [(P2 )Cu{M(CN)2 }]n (M=Cu 3, Ag 4, Au 5) and molecular tetrametallic clusters [{(P4 )MM'(CN)}2 ]2+ (MM'=Cu2 6, Ag2 7, AgCu 8, AuCu 9, AuAg 10) were obtained using the bidentate P2 and tetradentate P4 phosphane ligands (P2 =1,2-bis(diphenylphosphino)benzene; P4 =tris(2-diphenylphosphinophenyl)phosphane). All title complexes were crystallographically characterized to reveal a zig-zag chain arrangement for 1 and 3-5, whereas 6-10 possess metallocyclic frameworks with different degree of metal-metal bonding. The d10 -d10 interactions were evaluated by the quantum theory of atoms in molecules (QTAIM) computational approach. The photophysical properties of 1-10 were investigated in the solid state and supported by theoretical analysis. The emission of compounds 1 and 3-5, dominated by metal-to-ligand charge transfer (MLCT) transitions located within {CuP2 } motifs, is compatible with thermally activated delayed fluorescence (TADF) behaviour and a small energy gap between the T1 and S1 excited states. The luminescence characteristics of 6-10 are strongly dependent on the composition of the metal core; the emission band maxima vary in the range 484-650 nm with quantum efficiency reaching 0.56 (6). The origin of the emission for 6-8 and 10 at room temperature is assigned to delayed fluorescence. AuCu cluster 9, however, exhibits only phosphorescence that corresponds to theoretically predicted large value ΔE(S1 -T1 ). DFT simulation highlights a crucial impact of metallophilic bonding on the nature and energy of the observed emission, the effect being greatly enhanced in the excited state.

Linking ReI and PtII Chromophores with Aminopyridines: A Simple Route to Achieve a Complicated Photophysical Behavior.

The bifunctional aminopyridine ligands H2 N-(CH2 )n -4-C5 H4 N (n=0, L1; 1, L2; 2, L3) have been utilized for the preparation of the rhenium complexes [Re(phen)(CO)3 (L1-L3)]+ (1-3; phen=phenanthroline). Complexes 2 and 3 with NH2 -coordinated L2 and L3, respectively, were coupled with cycloplatinated motifs {Pt(ppy)Cl} and {Pt(dpyb)}+ (ppy=2-phenylpyridine, dpyb=dipyridylbenzene) to give the bimetallic species [Re(phen)(CO)3 (µ-L2/L3)Pt(ppy)Cl]+ (4, 6) and [Re(phen)(CO)3 (µ-L2/L3)Pt(dpyb)]2+ (5, 7). In solution, complexes 4 and 6 show 3 MLCT {Re}-based emission at 298 K, which changes to the 3 IL(ppy) state at 77 K. The photophysical properties of compounds 5 and 7 display a pronounced concentration dependence, presumably due to the formation of bimolecular aggregates. Analysis of the spectroscopic data, combined with TD-DFT simulations, suggest that unconventional heteroleptic {Re(phen)}⋅⋅⋅{Pt(dpyb)} π-π stacking operates as the driving force for ground-state association. The latter, together with intra- and intermolecular energy-transfer processes, determines the appearance of multiple emission bands and results in nonlinear relaxation kinetics of the excited states.

Coordination to Imidazole Ring Switches on Phosphorescence of Platinum Cyclometalated Complexes: The Route to Selective Labeling of Peptides and Proteins via Histidine Residues.

In this study, we have shown that substitution of chloride ligand for imidazole (Im) ring in the cyclometalated platinum complex Pt(phpy)(PPh3)Cl (1; phpy, 2-phenylpyridine; PPh3, triphenylphosphine), which is nonemissive in solution, switches on phosphorescence of the resulting compound. Crystallographic and nuclear magnetic resonance (NMR) spectroscopic studies of the substitution product showed that the luminescence ignition is a result of Im coordination to give the [Pt(phpy)(Im)(PPh3)]Cl complex. The other imidazole-containing biomolecules, such as histidine and histidine-containing peptides and proteins, also trigger luminescence of the substitution products. The complex 1 proved to be highly selective toward the imidazole ring coordination that allows site-specific labeling of peptides and proteins with 1 using the route, which is orthogonal to the common bioconjugation schemes via lysine, aspartic and glutamic acids, or cysteine and does not require any preliminary modification of a biomolecule. The utility of this approach was demonstrated on (i) site-specific modification of the ubiquitin, a small protein that contains only one His residue in its sequence, and (ii) preparation of nonaggregated HSA-based Pt phosphorescent probe. The latter particles easily internalize into the live HeLa cells and display a high potential for live-cell phosphorescence lifetime imaging (PLIM) as well as for advanced correlation PLIM and FLIM experiments.

Solid-State and Solution Metallophilic Aggregation of a Cationic [Pt(NCN)L](+) Cyclometalated Complex.

The noncovalent intermolecular interactions (π-π stacking, metallophilic bonding) of the cyclometalated complexes [Pt(NCN)L](+)X(-) (NCN = dipyridylbenzene, L = pyridine (1), acetonitrile (2)) are determined by the steric properties of the ancillary ligands L in the solid state and in solution, while the nature of the counterion X(-) (X(-) = PF6(-), ClO4(-), CF3SO3(-)) affects the molecular arrangement of 2·X in the crystal medium. According to the variable-temperature X-ray diffraction measurements, the extensive Pt···Pt interactions and π-stacking in 2·X are significantly temperature-dependent. The variable concentration (1)H and diffusion coefficients NMR measurements reveal that 2·X exists in the monomeric form in dilute solutions at 298 K, while upon increase in concentration [Pt(NCN)(NCMe)](+) cations undergo the formation of the ground-state oligomeric aggregates with an average aggregation number of ∼3. The photoluminescent characteristics of 1 and 2·X are largely determined by the intermolecular aggregation. For the discrete molecules the emission properties are assigned to metal perturbed IL charge transfer mixed with some MLCT contribution. In the case of oligomers 2·X the luminescence is significantly red-shifted with respect to 1 and originates mainly from the (3)MMLCT excited states. The emission energies depend on the structural arrangement in the crystal and on the complex concentration in solution, variation of which allows for the modulation of the emission color from greenish to deep red. In the solid state the lability of the ligands L leads to vapor-induced reversible transformation 1 ↔ 2 that is accompanied by the molecular reorganization and, consequently, dramatic change of the photophysical properties. Time-dependent density functional theory calculations adequately support the models proposed for the rationalization of the experimental observations.

Supramolecular Au(I)-Cu(I) Complexes as New Luminescent Labels for Covalent Bioconjugation.

Two new supramolecular organometallic complexes, namely, [Au6Cu2(C2C6H4CHO)6(PPh2C6H4PPh2)3](PF6)2 and [Au6Cu2(C2C6H4NCS)6(PPh2C6H4PPh2)3](PF6)2, with highly reactive aldehyde and isothiocyanate groups have been synthesized and characterized using X-ray crystallography, ESI mass spectrometry, and NMR spectroscopy. The compounds obtained demonstrated bright emission in solution with the excited-state lifetime in microsecond domain both under single- and two-photon excitation. The luminescent complexes were found to be suitable for bioconjugation in aqueous media. In particular, they are able to form the covalent conjugates with proteins of different molecular size (soybean trypsin inhibitor, human serum albumin, rabbit anti-HSA antibodies). The conjugates demonstrated a high level of the phosphorescent emission from the covalently bound label, excellent solubility, and high stability in physiological media. The highest quantum yield, storage stability, and luminance were detected for bioconjugates formed by covalent attachment of the aldehyde-bearing supramolecular Au(I)-Cu(I) complex. The measured biological activity of one of the labeled model proteins clearly showed that introduced label did not prevent the biorecognition and specific protein-protein complex formation that was extremely important for the application of the conjugates in biomolecular detection and imaging.

HSA-based phosphorescent probe for two-photon in vitro visualization.

Two-photon microscopy reveals several advantages over conventional one since it provides higher spatial resolution as well as deeper penetration into the sample under study. The development of suitable two-photon probes is one of the most challenging tasks in this area. Here we present phosphorescent non-covalent adduct of human serum albumin and Au-Ag alkynyl-diphosphine complex, [Au14Ag4(C2Ph)12(PPh2C6H4PPh2)6][PF6]4, which exhibits high cross section of two-photon-induced luminescence (δTPE) within large near-infrared excitation wavelength region (700-800 nm) with maximum δTPE about 38 GM at 740 nm. This feature makes it a promising probe for multiphoton bioimaging as demonstrated by successful visualization of glioma C6 cells and various tissues by two-photon confocal microscopy both in planar and z-stacking modes. Additionally, the broad excitation region enables optimization of the signal-to-background auto-fluorescence ratio via variation of excitation wavelength.

Sky-blue luminescent Au(I)-Ag(I) alkynyl-phosphine clusters.

Treatment of the (AuC2R)n acetylides with phosphine ligand 1,4-bis(diphenylphosphino)butane (PbuP) and Ag(+) ions results in self-assembly of the heterobimetallic clusters of three structural types depending on the nature of the alkynyl group. The hexadecanuclear complex [Au12Ag4(C2R)12(PbuP)6](4+) (1) is formed for R = Ph, and the octanuclear species [Au6Ag2(C2R)6(PbuP)3](2+) adopting two structural arrangements in the solid state were found for the aliphatic alkynes (R = Bu(t) (2), 2-propanolyl (3), 1-cyclohexanolyl (4), diphenylmethanolyl (5), 2-borneolyl (6)). The structures of the compounds 1-4 and 6 were determined by single crystal X-ray diffraction analysis. The NMR spectroscopic studies revealed complicated dynamic behavior of 1-3 in solution. In particular, complexes 2 and 3 undergo reversible transformation, which involves slow interconversion of two isomeric forms. The luminescence behavior of the titled clusters has been studied. All the compounds exhibit efficient sky-blue room-temperature phosphorescence both in solution and in the solid state with maximum quantum yield of 76%. The theoretical DFT calculations of the electronic structures demonstrated the difference in photophysical properties of the compounds depending on their structural topology.

Luminescent heterometallic gold-copper alkynyl complexes stabilized by tridentate phosphine.

The reactions between trinuclear gold complex tppmAu(3)Cl(3) (tppm = tris(diphenylphosphino)methane), arylacetylenes HC(2)C(6)H(4)X and Cu(+) under basic conditions result in formation of the heterometallic complexes [tppm(AuC(2)C(6)H(4)X)(3)Cu](+), X = H (1), COOMe (2), CN (3), OMe (4), NH(2) (5). These compounds belong to one structural motif and consist of the heterometallic {(AuC(2)C(6)H(4)X)(3)Cu} core stabilized by the tridentate phosphine. Compounds 1-5 were characterized by polynuclear NMR and IR spectroscopy, ESI-MS and single-crystal X-ray analysis. Luminescence properties of these complexes have been studied and revealed a substantial red shift of the emission maxima with the increase in the electron donicity of the alkynyl ligands substituents in the 550-680 nm range. The theoretical calculations of the electronic structures showed that variations of the substituents on the alkynyl ligands display very little effect on the molecular structural parameters but show appreciable influence on the orbital energies and luminescence characteristics of the compounds under study.

Coinage metal complexes of 2-diphenylphosphino-3-methylindole.

Coordination of P,N indolyl-phosphine ligands to Au(I), Ag(I) and Cu(I) metal ions under weakly basic conditions results in easy deprotonation of the indolyl N-H function and effective formation of a family of homo- and heterobimetallic complexes MM'(PPh(2)C(9)H(7)N)(2) (M = M' = Au (2), Ag (5); M = Au, M' = Cu (3), Ag (4)). The latter (4) exists as an inseparable mixture of four different complexes, which are in equilibrium driven by slow dynamics. The reaction of silver(I) and copper(I) ions with PPh(2)(C(9)H(8)N) affords a rare tetranuclear Z-shaped cluster Ag(2)Cu(2)(PPh(2)C(9)H(7)N)(4) (6), which exhibits red luminescence in solid state (650 nm) and a weak dual emission in solution with the main component in the near-IR region (746 nm).

Assembly of the heterometallic Au(I)-M(I) (M = Cu, Ag) clusters containing the dialkyne-derived diphosphines: synthesis, luminescence and theoretical studies.

The novel heterobimetallic Au(I)-M(I) (M = Cu, Ag) alkynyl-diphosphine clusters were effectively prepared using a family of dialkynyl-based diphosphines, PPh(2)-C(2)-(C(6)H(4))(n)-C(2)-PPh(2) (n = 0-2). These compounds consist of [Au(x)M(y)(C(2)C(6)H(4)R)(2x)](y-x) clusters (x = (n + 2)(n + 3)/2; y = (n + 1)(n + 2)) "wrapped" in gold-diphosphine "belts" (M = Cu, n = 0, R = H (4); n = 1, R = H (6), OMe (8), NMe(2) (9). M = Ag, n = 0, 1, 2, R = H (5, 7, 10). The solid-state structures of 5 and 6 have been determined by X-ray crystallographic studies, other complexes were characterized by NMR spectroscopy and ESI-MS measurements. The luminescence behavior of these compounds has been studied both in the solid state and solution, and intense room-temperature emission in fluid medium with maximum quantum yield of 0.5 (6) was detected. Computational studies have been carried out and the theoretical results obtained are in good agreement with the experimental data. The calculations provided additional information on the structural and electronic properties of the aggregates under investigation and allowed for the rationalization of the difference in their photophysical behavior.

Reversible protonation of amine-functionalized luminescent Au-Cu clusters: characterization, photophysical and theoretical studies.

Reaction of the polymeric alkynyl complexes (AuC(2)C(6)H(4)R)(n) (R = 4-NH(2) and 3-NH(2)) with the diphosphine PPh(2)C(6)H(4)PPh(2) in the presence of Cu(+) ions gave two novel heterometallic aggregates [{Au(3)Cu(2)(C(2)C(6)H(4)R)(6)}Au(3)(PPh(2)C(6)H(4)PPh(2))(3)](PF(6))(2) (R = 4-NH(2) (2), 3-NH(2) (3)). The compounds obtained were characterized by NMR spectroscopy and ESI-MS measurements. The solid-state structure of their 4-NMe(2) congener 1 is reported. The complexes 1-3 reversibly react with strong (HSO(3)Me and HSO(3)CF(3)) acids to give the adducts [{Au(3)Cu(2)(C(2)C(6)H(4)-R)(6)*(R'SO(3)H)(6)}Au(3)(PPh(2)C(6)H(4)PPh(2))(3)](PF(6))(2) (R = 4-NMe(2) (4), 4-NH(2) (5), 3-NH(2) (6)) with six acid molecules bound to the amine groups of the alkynyl ligands. Composition and structure of the adducts were established using ESI-MS and multinuclear ((31)P, (1)H and (1)H-(1)H COSY) NMR spectroscopy. It was found that formation of these adducts results in crucial changes of luminescence characteristics of the complexes 1-3 to give substantial (ca. 100 nm) blue shift of the emission maxima and a sharp increase (about an order of magnitude) in luminescence quantum yield for 4-NR(2) substituted derivatives. In the case of 3-substituted complex 3 the effect of adduct formation is much less pronounced and leads to blue-shift of emission maximum for 30 nm accompanied with a small drop in emission quantum yield. Computational studies have been performed to provide additional insight into the structural, electronic and photophysical properties of the starting complexes and their acid adducts. Interpretation of the photophysical effects induced by the adduct formation was suggested.

Supramolecular luminescent gold(I)-copper(I) complexes: self-assembly of the Au(x)Cu(y) clusters inside the [Au3(diphosphine)3]3+ triangles.

The reactions between diphosphino-alkynyl gold complexes (PhC2Au)PPh2(C6H4)(n)PPh2(AuC2Ph) (n = 1, 2, 3) with Cu(+) lead to formation of the heterometallic aggregates, the composition of which may be described by a general formula [{Au(x)Cu(y)(C2Ph)2x}Au3{PPh2(C6H4)(n)PPh2}3](3+(y-x)) (n = 1, 2, 3; x = (n + 1)(n + 2)/2; y = n(n + 1)). These compounds display very similar structural patterns and consist of the [Au(x)Cu(y)(C2Ph)2x](y-x) alkynyl clusters "wrapped" in the [Au3(diphosphine)3](3+) triangles. The complex for n = 1 was characterized crystallographically and spectrally, the larger ones (n = 2, 3) were investigated in detail by NMR spectroscopy. Their luminescence behavior has been studied, and a remarkably efficient emission with a maximum quantum yield of 0.92 (n = 1) has been detected. Photophysical experiments demonstrate that an increase of the size of the aggregates leads to a decrease in photostability and photoefficiency. Computational studies have been performed to provide additional insight into the structural and electronic properties of these supramolecular complexes. The theoretical results obtained are in good agreement with the experimental data, supporting the proposed structural motif. These studies also suggest that the observed efficient long-wavelength luminescence originates from metal-centered transitions within the heterometallic Au-Cu core.