What makes a crystal structure report valid?

Two-Fold Interpenetrated Binuclear Nickel Metal-Organic Framework as a Heterogeneous Catalyst for N-Heterocycle Synthesis

A binuclear Ni(II)-based metal-organic framework {[Ni2(btb)1.333(H2O)3.578(py)1.422]·(DMF)(H2O)3.25}n (Nibtb) was solvothermally synthesized (H3btb = 1,3,5-tri(4-carboxylphenyl)benzene, py = pyridine, DMF = N,N-dimethylformamide). Nibtb shows a rare 2-fold interpenetrating (3,4)-connected 3D network with a point symbol of (83)4(86)3 based on binuclear Ni(II) clusters. Nibtb as a heterogeneous catalyst combines the high stability of MOFs and excellent catalytic activity of nickel, which exhibits excellent catalytic activity for the synthesis of benzimidazoles and pyrazoles under mild conditions. Moreover, the catalyst can be easily separated and reused for seven successive cycles and maintains high catalytic activity.

Advanced crystallisation methods for small organic molecules

Molecular materials based on small organic molecules often require advanced structural analysis, beyond the capability of spectroscopic techniques, to fully characterise them. In such cases, diffraction methods such as single crystal X-ray diffraction (SCXRD), are one of the most powerful tools available to researchers, providing molecular and structural elucidation at atomic level resolution, including absolute stereochemistry. However SCXRD, and related diffraction methods, are heavily dependent on the availability of suitable, high-quality crystals, thus crystallisation often becomes the major bottleneck in preparing samples. Following a summary of classical methods for the crystallisation of small organic molecules, this review will focus on a number of recently developed advanced methods for crystalline material sample preparation for SCXRD. This review will cover two main areas of modern small organic molecule crystallisation, namely the inclusion of molecules within host complexes (e.g., "crystalline sponge" and tetraaryladamantane based inclusion chaperones) and the use of high-throughput crystallisation, employing "under-oil" approaches (e.g., microbatch under-oil and ENaCt). Representative examples have been included for each technique, together with a discussion of their relative advantages and limitations to aid the reader in selecting the most appropriate technique to overcome a specific analytical challenge.

High-pressure synthesis and crystal structure determination of Tb2SiB2O8

We report the high-pressure/high-temperature synthesis (11 GPa, 1300 °C) of the new compound Tb2SiB2O8. This rare earth borosilicate crystallizes in the orthorhombic space group Pbcn (no. 60) with the unit cell parameters a = 13.2480(3), b = 4.3904(1), and c = 9.1611(3) Å. It is built up of corner-sharing [BO4] tetrahedra forming infinite chains, that are connected to layers via [SiO4] tetrahedra. The layers are connected via [TbO7] polyhedra.

Achieving stable photoluminescence by double thiacalix[4]arene-capping: the lanthanide-oxo cluster core matters

Luminescence stability is a critical consideration for applying phosphors in practical devices. In this work, we report two categories of double p-tert-butylthiacalix[4]arene (H₄TC4A) capped clusters that exhibit characteristic lanthanide luminescence. Specifically, {[Ln₄(μ₄-OH)(TC4A)₂(DMF)₆(CH₃OH)₃(HCOO)Cl₂]}·xCH₃OH (Ln = Eu (1), Tb (2); x = 0–1) with square-planar [Ln₄(μ₄-OH)] cluster cores and {[Ln₉(μ₅-OH)₂(μ₃-OH)₈(OCH₃) (TC4A)₂ (H₂O)₂₄Cl₉]}·xDMF (Ln = Gd (3), Tb (4), Dy (5); x = 2–6) with hourglass-like [Ln₉(μ₅-OH)₂(μ₃-OH)₈] cluster cores are synthesized and characterized. By comparing 2 and 4, we find that several critical luminescence properties (such as quantum efficiency and luminescence stabilities) depend directly on the cluster core structure. With the square-planar [Ln₄(μ₄-OH)] cluster cores, 2 demonstrates high quantum yield (∼65%) and excellent luminescence stability against moisture, high temperature, and UV-radiation. A white light-emitting diode (LED) with ultrahigh color quality is successfully fabricated by mixing 2 with commercial phosphors. These results imply that high quality phosphors might be achieved by exploiting the double thiacalix[4]arene-capping strategy, with an emphasis on the cluster core structure.

{Ln₄} cores outperform {Ln₉} cores in achieving stable photoluminescence from double thiacalix[4]arene-capped lanthanide-oxo clusters.

The crystal structure of 5-(2-fluoro-3-methoxyphenyl)-1-(2-fluoro-6-(trifluoromethyl)benzyl)-6-methylpyrimidine-2,4(1H,3H)-dione, C20H15F5N2O3

C20H15F5N2O3, orthorhombic, Pbca (no. 61), a = 10.9913 (4) Å, b = 11.0451(5) Å, c = 30.3925(14) Å, V = 3689.6 (3) Å3, Z = 8, R gt (F) = 0.0360, wR ref (F 2) = 0.0927, T = 170 K.

The crystal structure of 3-((4-chloro-N-(2-methoxyethyl)benzamido)methyl)phenyl methanesulfonate, C18H20ClNO5S

C18H20ClNO5S, monoclinic, P21/n (no. 14), a = 5.671(4) Å, b = 18.225(13) Å, c = 17.99(2) Å, β = 90.18(4)°, V = 1859(3) Å3, Z = 4, R gt (F) = 0.0316, wR ref (F 2) = 0.0813, T = 170 K.

Nonplanar porphyrins: synthesis, properties, and unique functionalities

Porphyrins are variously substituted tetrapyrrolic macrocycles, with wide-ranging biological and chemical applications derived from metal chelation in the core and the 18π aromatic surface. Under suitable conditions, the porphyrin framework can deform significantly from regular planar shape, owing to steric overload on the porphyrin periphery or steric repulsion in the core, among other structure modulation strategies. Adopting this nonplanar porphyrin architecture allows guest molecules to interact directly with an exposed core, with guest-responsive and photoactive electronic states of the porphyrin allowing energy, information, atom and electron transfer within and between these species. This functionality can be incorporated and tuned by decoration of functional groups and electronic modifications, with individual deformation profiles adapted to specific key sensing and catalysis applications. Nonplanar porphyrins are assisting breakthroughs in molecular recognition, organo- and photoredox catalysis; simultaneously bio-inspired and distinctly synthetic, these molecules offer a new dimension in shape-responsive host-guest chemistry. In this review, we have summarized the synthetic methods and design aspects of nonplanar porphyrin formation, key properties, structure and functionality of the nonplanar aromatic framework, and the scope and utility of this emerging class towards outstanding scientific, industrial and environmental issues.

X-ray structure, hirshfeld surfaces and interaction energy studies of 2,2-diphenyl-1-oxa-3-oxonia-2-boratanaphthalene

Single crystal XRD structure of the title compound reveals that the molecule adopt non-planar structure. The molecule is puckered with the total puckering amplitude of (Q) = 0.368(3)Å. Crystals of the title molecules are interconnected by intermolecular O–H⋯O and C–H⋯O interactions to develop 1D chains extending infinitely along the crystallographic a-axis. The intermolecular interactions were explored by Hirshfeld surfaces and their associated fingerprint graphs are obtained which revealed that the H⋯H and H⋯C pairs of inter atomic contacts were pre-dominant in the crystal packing of title compound. The energy of intermolecular interactions are computed using the accurate energy density model of B3LYP/6–31 G(d,p).

Silver(I)-Tazobactam Frameworks with Improved Antimicrobial Activity

Tazobactam (TazoH) is a penicillinate sulfone β-lactamase inhibitor with negligible antimicrobial activity, commonly used with other antibiotics to provide an effective combination against many susceptible organisms expressing β-lactamases. Two novel Ag(I)-tazobactam frameworks ([Ag(I)-Tazo] and [Ag(I)-Tazo₂]) prepared by mechanochemistry are presented herein as alternative forms to improve the antimicrobial activity of tazobactam by exploring synergistic effects with silver, being the first crystal structures reported of tazobactam coordinating to a metal site. The topological analysis of the 3D ([Ag(I)-Tazo]) and 2D+1D ([Ag(I)-Tazo₂]) frameworks revealed underlying nets with the cbs (CrB self-dual) and decorated sql topologies, respectively. These novel frameworks are stable and show an enhanced antimicrobial activity when compared to tazobactam alone. Amongst the tested microorganisms, Pseudomonas aeruginosa is the most sensitive to tazobactam and the new compounds. This study thus unveils novel facets of tazobactam chemistry and opens up its application as a multifunctional linker for the design of antibiotic coordination frameworks and related materials.

Chemputation and the Standardization of Chemical Informatics

The explosion in the use of machine learning for automated chemical reaction optimization is gathering pace. However, the lack of a standard architecture that connects the concept of chemical transformations universally to software and hardware provides a barrier to using the results of these optimizations and could cause the loss of relevant data and prevent reactions from being reproducible or unexpected findings verifiable or explainable. In this Perspective, we describe how the development of the field of digital chemistry or chemputation, that is the universal code-enabled control of chemical reactions using a standard language and ontology, will remove these barriers allowing users to focus on the chemistry and plug in algorithms according to the problem space to be explored or unit function to be optimized. We describe a standard hardware (the chemical processing programming architecture-the ChemPU) to encompass all chemical synthesis, an approach which unifies all chemistry automation strategies, from solid-phase peptide synthesis, to HTE flow chemistry platforms, while at the same time establishing a publication standard so that researchers can exchange chemical code (χDL) to ensure reproducibility and interoperability. Not only can a vast range of different chemistries be plugged into the hardware, but the ever-expanding developments in software and algorithms can also be accommodated. These technologies, when combined will allow chemistry, or chemputation, to follow computation-that is the running of code across many different types of capable hardware to get the same result every time with a low error rate.

[Co3(μ3-O)]-Based Metal-Organic Frameworks as Advanced Anode Materials in K- and Na-Ion Batteries

A new metal-organic framework {(Me₂NH₂)₂[Co₃(μ₃-O)(btb)₂(py)(H₂O)]·(DMF)₂(H₂O)₂}_n (Cobtbpy) was solvothermal synthesized (H₃btb = 1,3,5-tri(4-carboxylphenyl)benzene, py = pyridine, DMF = N,N-dimethylformamide). Cobtbpy shows a (3,6)-connected rtl 3D network with a point symbol of (4·6²)₂(4²·6¹⁰·8³) based on the [Co₃(μ₃-O)] clusters. The obtained Cobtbpy has stable, accessible, dense active sites and can be applied in the potassium- and sodium-ion batteries. Through mixing with single-walled carbon nanotubes, the prepared composite anode material Cobtbpy-0.9 achieved a high reversible capability, delivering 416 mAh/g in the potassium-ion batteries and 379 mAh/g in the sodium-ion batteries at 0.05 A/g. The outstanding properties of Cobtbpy-0.9 in the batteries demonstrated that this MOFs-based carbon composite is a highly desirable electrode material candidate for high-performance potassium- and sodium-ion batteries.

From pipemidic acid molecular salts to metal complexes and BioMOFs using mechanochemistry

Mechanochemistry has proven to be an excellent sustainable, efficient and fast tool for the discovery of new crystal forms of old drugs.

Structural Expansion of Chalcogenido Tetrelates in Ionic Liquids by Incorporation of Sulfido Antimonate Units

Multinary chalcogenido (semi)metalate salts exhibit finely tunable optical properties based on the combination of metal and chalcogenide ions in their polyanionic substructure. Here, we present the structural expansion of chalcogenido germanate(IV) or stannate(IV) architectures with SbIII , which clearly affects the vibrational and optical absorption properties of the solid compounds. For the synthesis of the title compounds, [K4 (H2 O)4 ][Ge4 S10 ] or [K4 (H2 O)4 ][SnS4 ] were reacted with SbCl3 under ionothermal conditions in imidazolium-based ionic liquids. Salt metathesis at relatively low temperatures (120 °C or 150 °C) enabled the incorporation of (formally) Sb3+ ions into the anionic substructure of the precursors, and their modification to form (Cat)16 [Ge2 Sb2 S7 ]6 [GeS4 ] (1) and (Cat)6 [Sn10 O4 S20 ][Sb3 S4 ]2 (2 a and 2 b), wherein Cat=(C4 C1 C1 Im)+ (1 and 2 a) or (C4 C1 C2 Im)+ (2 b). In 1, germanium and antimony atoms are combined to form a rare noradamantane-type ternary molecular anion, six of which surround an {GeS4 } unit in a highly symmetric secondary structure, and finally crystallize in a diamond-like superstructure. In 2, supertetrahedral oxo-sulfido stannate clusters are generated, as known from the ionothermal treatment of the stannate precursor alone, yet, linked here into unprecedented one-dimensional strands with {Sb3 S4 } units as linkers. We discuss the single-crystal structures of these uncommon salts of ternary and quaternary chalcogenido (semi)metalate anions, as well as their Raman and UV-visible spectra.

Rhenium versus cadmium: an alternative structure for a thermally stable cadmium carbonyl compound

An alternative description is provided for the previously reported novel tetranuclear cadmium carbonyl compound, [Cd(CO)3(C6H3Cl)]4. Specifically, consideration of single crystal X-ray diffraction data indicates that the compound is better formulated as the rhenium compound, [Re(CO)3(C4N2H3S)]4. Furthermore, density functional theory calculations predict that, if it were to exist, [Cd(CO)3(C6H3Cl)]4 would have a very different structure to that reported. While it is well known that X-ray diffraction may not reliably distinguish between atoms of similar atomic number (e.g. N/C and Cl/S), it is not generally recognized that two atoms with very different atomic numbers could be misassigned. The misidentification of two elements as diverse as Re and Cd (ΔZ = 27) is unexpected and serves as an important caveat for structure determinations.

Homoleptic mono-, di-, and tetra-iron complexes featuring phosphido ligands: a synthetic, structural, and spectroscopic study

We report the first series of homoleptic phosphido iron complexes synthesized by treating either the β-diketiminato complex [(Dippnacnac)FeCl₂Li(dme)₂] (Dippnacnac = HC[(CMe)N(C₆H₃-2,6-iPr₂)]₂) or [FeBr₂(thf)₂] with an excess of phosphides R₂PLi (R = tBu, tBuPh, Cy, iPr). Reaction outcomes depend strongly on the bulkiness of the phosphido ligands. The use of tBu₂PLi precursor led to an anionic diiron complex 1 encompassing a planar Fe₂P₂ core with two bridging and two terminal phosphido ligands. An analogous reaction employing less sterically demanding phosphides, tBuPhPLi and Cy₂PLi yielded diiron anionic complexes 2 and 3, respectively, featuring a short Fe-Fe interaction supported by three bridging phosphido groups and one additional terminal R₂P^- ligand at each iron center. Further tuning of the P-substrates bulkiness gave a neutral phosphido complex 4 possessing a tetrahedral Fe₄ cluster core held together by six bridging iPr₂P moieties. Moreover, we also describe the first homoleptic phosphanylphosphido iron complex 5, which features an iron center with low coordination provided by three tBu₂P-P(SiMe₃)^- ligands. The structures of compounds 1-5 were determined by single-crystal X-ray diffraction and 1-3 by ¹H NMR spectroscopy. Moreover, the electronic structures of 1-3 were interrogated using zero-field Mössbauer spectroscopy and DFT methods.

Two Beta-Phosphorylamide Compounds as Ligands for Sm3+, Eu3+, and Tb3+: X-ray Crystallography and Luminescence Properties

This paper describes the synthesis of two beta-phosphorylamide ligands and their coordination chemistry with the Ln ions Tb³⁺, Eu³⁺, and Sm³⁺. Both the ligands and Ln complexes were characterized by IR, NMR, MS, and X-ray crystallography. The luminescence properties of the Tb³⁺ and Eu³⁺ complexes were also characterized, including the acquisition of lifetime decay curves. In the solid state, the Tb³⁺ and Sm³⁺ ligand complexes were found to have a 2:2 stoichiometry when analyzed by X-ray diffraction. In these structures, the Ln ion was bound by both oxygen atoms of each beta-phosphorylamide moiety of the ligands. The Tb³⁺ and Eu³⁺ complexes were modestly emissive as solutions in acetonitrile, with lifetime values that fell within typical ranges.

Poly[(μ4-5,7-dihydro-1H,3H-dithieno[3,4-b:3′,4′-e]pyrazine-κ4 N:N′:S:S′)tetra-μ3-iodido-tetracopper]: a three-dimensional copper(I) coordination polymer

The reaction of ligand 5,7-di­hydro-1H,3H-dithieno[3,4-b:3′,4′-e]pyrazine with CuI lead to the formation of a three-dimensional coordination polymer.

The reaction of ligand 5,7-di­hydro-1H,3H-dithieno[3,4-b:3′,4′-e]pyrazine (L) with CuI lead to the formation of a three-dimensional coordination polymer, incorporating the well known [Cu_xI_x]_n staircase motif (x = 4). These polymer [Cu₄I₄]_n chains are linked via the N and S atoms of the ligand to form the three-dimensional coordination polymer poly[(μ₄-5,7-di­hydro-1H,3H-dithieno[3,4-b:3′,4′-e]pyrazine-κ⁴N:N′:S:S′)tetra-μ₃-iodido-tetra­copper], [Cu₄I₄(C₈H₈N₂S₂)]_n (I). The asymmetric unit is composed of half a ligand mol­ecule, with the pyrazine ring located about a center of symmetry, and two independent copper(I) atoms and two independent I⁻ ions forming the staircase motif via centers of inversion symmetry. The framework is consolidated by C—H⋯I hydrogen bonds.

checkCIF validation ALERTS: what they mean and how to respond

Authors of a paper that includes a new crystal-structure determination are expected to not only report the structural results of inter-est and their inter-pretation, but are also expected to archive in computer-readable CIF format the experimental data on which the crystal-structure analysis is based. Additionally, an IUCr/checkCIF validation report will be required for the review of a submitted paper. Such a validation report, automatically created from the deposited CIF file, lists as ALERTS not only potential errors or unusual findings, but also suggestions for improvement along with inter-esting information on the structure at hand. Major ALERTS for issues are expected to have been acted on already before the submission for publication or discussed in the associated paper and/or commented on in the CIF file. In addition, referees, readers and users of the data should be able to make their own judgment and inter-pretation of the underlying experimental data or perform their own calculations with the archived data. All the above is consistent with the FAIR (findable, accessible, inter-operable, and reusable) initiative [Helliwell (2019 ▸). Struct. Dyn. 6, 05430]. Validation can also be helpful for less experienced authors in pointing to and avoiding of crystal-structure determination and inter-pretation pitfalls. The IUCr web-based checkCIF server provides such a validation report, based on data uploaded in CIF format. Alternatively, a locally installable checkCIF version is available to be used iteratively during the structure-determination process. ALERTS come mostly as short single-line messages. There is also a short explanation of the ALERTS available through the IUCr web server or with the locally installed PLATON/checkCIF version. This paper provides additional background information on the checkCIF procedure and additional details for a number of ALERTS along with options for how to act on them.

Revisiting 2-chloro-4-nitroaniline: analysis of intricate supramolecular ordering of a triclinic polymorph featuring a high Z value and strong second harmonic generation

A new polymorph of 2-chloro-4-nitroaniline is more stable than its 55 year-old antecedent.

A Million Crystal Structures: The Whole Is Greater than the Sum of Its Parts

The founding in 1965 of what is now called the Cambridge Structural Database (CSD) has reaped dividends in numerous and diverse areas of chemical research. Each of the million or so crystal structures in the database was solved for its own particular reason, but collected together, the structures can be reused to address a multitude of new problems. In this Review, which is focused mainly on the last 10 years, we chronicle the contribution of the CSD to research into molecular geometries, molecular interactions, and molecular assemblies and demonstrate its value in the design of biologically active molecules and the solid forms in which they are delivered. Its potential in other commercially relevant areas is described, including gas storage and delivery, thin films, and (opto)electronics. The CSD also aids the solution of new crystal structures. Because no scientific instrument is without shortcomings, the limitations of CSD research are assessed. We emphasize the importance of maintaining database quality: notwithstanding the arrival of big data and machine learning, it remains perilous to ignore the principle of garbage in, garbage out. Finally, we explain why the CSD must evolve with the world around it to ensure it remains fit for purpose in the years ahead.

Three novel topologically different metal–organic frameworks built from 3-nitro-4-(pyridin-4-yl)benzoic acid

The design and synthesis of metal–organic frameworks (MOFs) have attracted much interest due to the intriguing diversity of their architectures and topologies. However, building MOFs with different topological structures from the same ligand is still a challenge. Using 3-nitro-4-(pyridin-4-yl)benzoic acid (HL) as a new ligand, three novel MOFs, namely poly[[(N,N-dimethylformamide-κO)bis[μ2-3-nitro-4-(pyridin-4-yl)benzoato-κ3 O,O′:N]cadmium(II)] N,N-dimethylformamide monosolvate methanol monosolvate], {[Cd(C12H7N2O4)2(C3H7NO)]·C3H7NO·CH3OH} n , (1), poly[[(μ2-acetato-κ2 O:O′)[μ3-3-nitro-4-(pyridin-4-yl)benzoato-κ3 O:O′:N]bis[μ3-3-nitro-4-(pyridin-4-yl)benzoato-κ4 O,O′:O′:N]dicadmium(II)] N,N-dimethylacetamide disolvate monohydrate], {[Cd2(C12H7N2O4)3(CH3CO2)]·2C4H9NO·H2O} n , (2), and catena-poly[[[diaquanickel(II)]-bis[μ2-3-nitro-4-(pyridin-4-yl)benzoato-κ2 O:N]] N,N-dimethylacetamide disolvate], {[Ni(C12H7N2O4)2(H2O)2]·2C4H9NO} n , (3), have been prepared. Single-crystal structure analysis shows that the CdII atom in MOF (1) has a distorted pentagonal bipyramidal [CdN2O5] coordination geometry. The [CdN2O5] units as 4-connected nodes are interconnected by L − ligands to form a fourfold interpenetrating three-dimensional (3D) framework with a dia topology. In MOF (2), there are two crystallographically different CdII ions showing a distorted pentagonal bipyramidal [CdNO6] and a distorted octahedral [CdN2O4] coordination geometry, respectively. Two CdII ions are connected by three carboxylate groups to form a binuclear [Cd2(COO)3] cluster. Each binuclear cluster as a 6-connected node is further linked by acetate groups and L − ligands to produce a non-interpenetrating 3D framework with a pcu topology. MOF (3) contains two crystallographically distinct NiII ions on special positions. Each NiII ion adopts an elongated octahedral [NiN2O4] geometry. Each NiII ion as a 4-connected node is linked by L − ligands to generate a two-dimensional network with an sql topology, which is further stabilized by two types of intermolecular OW—HW...O hydrogen bonds to form a 3D supramolecular framework. MOFs (1)–(3) were also characterized by powder X-ray diffraction, IR spectroscopy and thermogravimetic analysis. Furthermore, the solid-state photoluminescence of HL and MOFs (1) and (2) have been investigated. The photoluminescence of MOFs (1) and (2) are enhanced and red-shifted with respect to free HL. The gas adsorption investigation of MOF (2) indicates a good separation selectivity (71) of CO2/N2 at 273 K (i.e. the amount of CO2 adsorption is 71 times higher than N2 at the same pressure).

Crystal structure of (2E,4Z)-dimethyl 4-((phenylamino)methylene)pent-2-enedioate, C14H15N1O4

C14H15N1O4, triclinic, P1̄, a = 8.2018(4) Å, b = 11.5512(5) Å, c = 14.4121(7) Å, α = 79.242(2)°, β = 78.647(3)°, γ = 85.496(3)°, V = 1313.93(11) Å3, Z = 2, R gt(F) = 0.0548, wR ref(F 2) = 0.1805, T = 296(2) K.

On the quality of the continuous rotation electron diffraction data for accurate atomic structure determination of inorganic compounds

The continuous rotation electron diffraction (cRED) method has the capability of providing fast three-dimensional electron diffraction data collection on existing and future transmission electron microscopes; unknown structures could be potentially solved and refined using cRED data collected from nano- and submicrometre-sized crystals. However, structure refinements of cRED data using SHELXL often lead to relatively high R1 values when compared with those refined against single-crystal X-ray diffraction data. It is therefore necessary to analyse the quality of the structural models refined against cRED data. In this work, multiple cRED data sets collected from different crystals of an oxofluoride (FeSeO3F) and a zeolite (ZSM-5) with known structures are used to assess the data consistency and quality and, more importantly, the accuracy of the structural models refined against these data sets. An evaluation of the precision and consistency of the cRED data by examination of the statistics obtained from the data processing software DIALS is presented. It is shown that, despite the high R1 values caused by dynamical scattering and other factors, the refined atomic positions obtained from the cRED data collected for different crystals are consistent with those of the reference models refined against single-crystal X-ray diffraction data. The results serve as a reference for the quality of the cRED data and the achievable accuracy of the structural parameters.

Crystal structure, electrochemical and spectroscopic investigation of mer-tris-[2-(1H-imidazol-2-yl-κN3)pyrimidine-κN1]ruthenium(II) bis-(hexa-fluorido-phosphate) trihydrate

The crystal structure of the title compound, [Ru(C7H6N4)3](PF6)2·3H2O, a novel RuII complex with the bidentate ligand 2-(1H-imidazol-2-yl)pyrimidine, comprises a complex cation in the meridional form exclusively, with a distorted octa-hedral geometry about the ruthenium(II) cation. The Ru-N bonds involving imidazole N atoms are comparatively shorter than the Ru-N bonds from pyrimidine because of the stronger basicity of the imidazole moiety. The three-dimensional hydrogen-bonded network involves all species in the lattice with water mol-ecules inter-acting with both counter-ions and NH hydrogen atoms from the complex. The supra-molecular structure of the crystal also shows that two units of the complex bind strongly through a mutual N-H⋯N bond. The electronic absorption spectrum of the complex displays an asymmetric band at 421 nm, which might point to the presence of two metal-to-ligand charge-transfer (MLCT) bands. Electrochemical measurements show a quasi-reversible peak referring to the RuIII/RuII reduction at 0.87 V versus Ag/AgCl.

New developments in crystallography: exploring its technology, methods and scope in the molecular biosciences

Since the Protein Data Bank (PDB) was founded in 1971, there are now over 120,000 depositions, the majority of which are from X-ray crystallography and 90% of those made use of synchrotron beamlines. At the Cambridge Structure Database (CSD), founded in 1965, there are more than 800,000 'small molecule' crystal structure depositions and a very large number of those are relevant in the biosciences as ligands or cofactors. The technology for crystal structure analysis is still developing rapidly both at synchrotrons and in home labs. Determination of the details of the hydrogen atoms in biological macromolecules is well served using neutrons as probe. Large multi-macromolecular complexes cause major challenges to crystallization; electrons as probes offer unique advantages here. Methods developments naturally accompany technology change, mainly incremental but some, such as the tuneability, intensity and collimation of synchrotron radiation, have effected radical changes in capability of biological crystallography. In the past few years, the X-ray laser has taken X-ray crystallography measurement times into the femtosecond range. In terms of applications many new discoveries have been made in the molecular biosciences. The scope of crystallographic techniques is indeed very wide. As examples, new insights into chemical catalysis of enzymes and relating ligand bound structures to thermodynamics have been gained but predictive power is seen as not yet achieved. Metal complexes are also an emerging theme for biomedicine applications. Our studies of coloration of live and cooked lobsters proved to be an unexpected favourite with the public and schoolchildren. More generally, public understanding of the biosciences and crystallography's role within the field have been greatly enhanced by the United Nations International Year of Crystallography coordinated by the International Union of Crystallography. This topical review describes each of these areas along with illustrative results to document the scope of each methodology.