Structures Reveals (structure + reveal)

Distribution by Scientific Domains


Selected Abstracts


Syntheses, Spectroscopic Studies, and Crystal Structures of Chiral [Rh(aminocarboxylato)(,4 -cod)] and Chiral [Rh(amino alcohol)(,4 -cod)](acetate) Complexes with an Example of a Spontaneous Resolution of a Racemic Mixture into Homochiral Helix-Enantiomers

EUROPEAN JOURNAL OF INORGANIC CHEMISTRY, Issue 11 2006
Mohammed Enamullah
Abstract The dimeric complex acetato(,4 -cycloocta-1,5-diene)rhodium(I), [Rh(O2CMe)(,4 -cod)]2 (cod = cycloocta-1,5-diene), reacts with amino acids [HAA = L -alanine, (S)-2-amino-2-phenylacetic acid (L -phenylglycine), N -methylglycine, and N -phenylglycine] and with the amino alcohol (S)-2-amino-2-phenylethanol to afford the aminocarboxylato(,4 -cycloocta-1,5-diene)rhodium(I) complexes [Rh(AA)(,4 -cod)] (AA = deprotonated amino acid = aminocarboxylato ligand) and [(S)-2-amino-2-phenylethanol](,4 -cycloocta-1,5-diene)rhodium(I) acetate, [Rh{(S)-HOCH2,CH(Ph)-NH2}(,4 -cod)](O2CMe) (V). The complexes are characterized by IR, UV/Vis, 1H/13C NMR and mass spectroscopy. The achiral N -phenylglycine ligand gives a chiral N -phenylglycinato complex [Rh(O2C,CH2,NHPh)(,4 -cod)] (IV) with the amine nitrogen atom becoming the stereogenic center upon metal coordination. Complex IV crystallizes in the tetragonal, chiral space group P43 and the crystal structure reveals twofold spontaneous resolution of a racemic mixture into homochiral helix-enantiomers. The investigated crystal contained only one type of helix, namely (left-handed or M- ) 43 -helical chains. This is traced first to an intermolecular N,H···O hydrogen bonding from the stereogenic amino group to a neighboring unligated carboxyl oxygen atom that connects only molecules of the same (R)-configuration into (left-handed or M- ) 43 -helical chains. This intrachain homochirality is supplemented, secondly, by the interlocking of adjacent chains with their corrugated van der Waals surface to allow for an interchain transmission of the sense of helicity, building the single crystal from the same homochiral helix-enantiomer. The enantiomeric amino alcohol complex V crystallizes in the monoclinic, noncentrosymmetric (Sohncke) space group P21. (© Wiley-VCH Verlag GmbH & Co. KGaA, 69451 Weinheim, Germany, 2006) [source]


Structural stability of clean GaAs nanowires grown along the [111] direction

PHYSICA STATUS SOLIDI (C) - CURRENT TOPICS IN SOLID STATE PHYSICS, Issue 2 2010
Rita Magri
Abstract Using a first-principles approach we have calculated the formation energies of small diameter GaAs nanowires (NWs) with both zinc-blende and wurtzite structure grown along the [111] direction. The section of the wires is hexagonal and the side facets are oriented either {11-20} and {10-10} in the case of the wurtzite structure, and {110} and {112} for the zinc-blende structure. The formation energy of the nanowires as a function of their radius is then interpreted in terms of a model in which the energy contributions from the bulks, the flat surfaces and the ridges are taken explicitly into account. We find that the nanowire stability is mainly explained by the competition between the bulk energy, favoring the zincblende structure and the surface energies favoring the wurtzite structure. We find also that the directly calculated formation energies of some small diameter wurtzite NWs can be reproduced by our model taking into account only the bulk and flat surface contributions. That is, the ridges do not contribute substantially to the nanowire formation energy. Inspection of the ridge structure and band structure reveals that this good agreement occurs when the NWs are semiconducting and the ridges do not add more dangling bonds to the surface with respect to those provided by the sidewalls. Within our model we find the critical diameter for the wurtzite-zinc-blende transition at 6.3 nm. (© 2010 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim) [source]


Crystal structure reveals two alternative conformations in the active site of ribonuclease Sa2

ACTA CRYSTALLOGRAPHICA SECTION D, Issue 7 2004
Jozef
Three different strains of Streptomyces aureofaciens produce the homologous ribonucleases Sa, Sa2 and Sa3. The crystal structures of ribonuclease Sa (RNase Sa) and its complexes with mononucleotides have previously been reported at high resolution. Here, the structures of two crystal forms (I and II) of ribonuclease Sa2 (RNase Sa2) are presented at 1.8 and 1.5 Å resolution. The structures were determined by molecular replacement using the coordinates of RNase Sa as a search model and were refined to R factors of 17.5 and 15.0% and Rfree factors of 21.8 and 17.2%, respectively. The asymmetric unit of crystal form I contains three enzyme molecules, two of which have similar structures to those seen for ribonuclease Sa, with Tyr87 at the bottom of their active sites. In the third molecule, Tyr87 has moved substantially: the CA atom moves almost 5,Å and the OH of the side chain moves 10,Å, inserting itself into the active site of a neighbouring molecule at a similar position to that observed for the nucleotide base in RNase Sa complexes. The asymmetric unit of crystal form II contains two Sa2 molecules, both of which are similar to the usual Sa structures. In one molecule, two main-chain conformations were modelled in the ,-helix. Finally, a brief comparison is made between the conformations of the Sa2 molecules and those of 34 independent molecules taken from 20 structures of ribonuclease Sa and two independent molecules taken from two structures of ribonuclease Sa3 in various crystal forms. [source]


Towards Understanding of the Selective Precipitation of Alkali Metal Cations in Presence of Dipicrylamine Anion

EUROPEAN JOURNAL OF INORGANIC CHEMISTRY, Issue 11 2005
Suresh Eringathodi
Abstract Dipicrylamine anion (DPA,) precipitates out [K(DPA)] with high selectivity from salt bitterns containing Na+, K+, and Mg2+, whereas the same ligand shows poor selectivity towards K+ , and much higher selectivity towards Cs+ , in studies conducted with a mixture of K+, Rb+, and Cs+. Their single-crystal structures reveal that the K+ and Rb+ salts have similar layered structures, with 8 oxygen atoms from seven DPA, anions encapsulating the metal cation, whereas the Cs+ salt possesses a channel-like structure with the metal ion encapsulated by ten oxygen atoms from six DPA,. The conformation of DPA, in the [Cs(DPA)] single crystal matches closely that of DPA in crystalline state. M···O and intermolecular C,H···O interactions together stabilize the structures. The 133Cs NMR spectrum of the poorly soluble [Cs(DPA)] shows an upfield shift of the peak with respect to CsCl as a result of the interaction with the oxygen atoms of DPA,, whereas 23Na NMR spectrum of the highly soluble [Na(DPA)] shows no such upfield shift compared to NaCl. Powder XRD patterns of bulk [M(DPA)] (M = K+, Rb+, and Cs+) precipitates show that these are similar to the patterns obtained by simulation of the single-crystal X-ray data. The selectivity of precipitation correlates qualitatively with the size and hydration enthalpies of the ions. (© Wiley-VCH Verlag GmbH & Co. KGaA, 69451 Weinheim, Germany, 2005) [source]


Alternative type I and I, turn conformations in the ,8/,9 ,-hairpin of human acidic fibroblast growth factor

PROTEIN SCIENCE, Issue 3 2002
Jaewon Kim
Abstract Human acidic fibroblast growth factor (FGF-1) has a ,-trefoil structure, one of the fundamental protein superfolds. The X-ray crystal structures of wild-type and various mutant forms of FGF-1 have been solved in five different space groups: C2, C2221, P21 (four molecules/asu), P21 (three molecules/asu), and P212121. These structures reveal two characteristically different conformations for the ,8/,9 ,-hairpin comprising residue positions 90,94. This region in the wild-type FGF-1 structure (P21, four molecules/asu), a his-tagged His93,Gly mutant (P21, three molecules/asu) and a his-tagged Asn106,Gly mutant (P212121) adopts a 3:5 ,-hairpin known as a type I (1,4) G1 ,-bulge (containing a type I turn). However, a his-tagged form of wild-type FGF-1 (C2221) and a his-tagged Leu44,Phe mutant (C2) adopt a 3:3 ,-hairpin (containing a type I, turn) for this same region. A feature that distinguishes these two types of ,-hairpin structures is the number and location of side chain positions with eclipsed C, and main-chain carbonyl oxygen groups (, , +60°). The effects of glycine mutations upon stability, at positions within the hairpin, have been used to identify the most likely structure in solution. Type I, turns in the structural data bank are quite rare, and a survey of these turns reveals that a large percentage exhibit crystal contacts within 3.0 Å. This suggests that many of the type I, turns in X-ray structures may be adopted due to crystal packing effects. [source]


Unique Ligand-Based Oxidative DNA Cleavage by Zinc(II) Complexes of Hpyramol and Hpyrimol

CHEMISTRY - A EUROPEAN JOURNAL, Issue 18 2007
Palanisamy, Uma Maheswari Dr.
Abstract The zinc(II) complexes reported here have been synthesised from the ligand 4-methyl-2- N -(2-pyridylmethyl)aminophenol (Hpyramol) with chloride or acetate counterions. All the five complexes have been structurally characterised, and the crystal structures reveal that the ligand Hpyramol gradually undergoes an oxidative dehydrogenation to form the ligand 4-methyl-2- N -(2-pyridylmethylene)aminophenol (Hpyrimol), upon coordination to ZnII. All the five complexes cleave the ,X174 phage DNA oxidatively and the complexes with fully dehydrogenated pyrimol ligands were found to be more efficient than the complexes with non-dehydrogenated Hpyramol ligands. The DNA cleavage is suggested to be ligand-based, whereas the pure ligands alone do not cleave DNA. The DNA cleavage is strongly suggested to be oxidative, possibly due to the involvement of a non-diffusible phenoxyl radical mechanism. The enzymatic religation experiments and DNA cleavage in the presence of different radical scavengers further support the oxidative DNA cleavage by the zinc(II) complexes. [source]


Controlled Fabrication of Multitiered Three-Dimensional Nanostructures in Porous Alumina,

ADVANCED FUNCTIONAL MATERIALS, Issue 14 2008
Audrey Yoke Yee Ho
Abstract We present the fabrication of multitiered branched porous anodic alumina (PAA) substrates consisting of an array of pores branching into smaller pores in succeeding tiers. The tiered three-dimensional structure is realized by sequentially stepping down the anodization potential while etching of the barrier layer is performed after each step. We establish the key processing parameters that define the tiered porous structure through systematically designed experiments. The characterization of the branched PAA structures reveals that, owing to constriction, the ratio of interpore distance to the anodization potential is smaller than that for pristine films. This ratio varies from 1.8 to 1.3,nm,V,1 depending on the size of the preceding pores and the succeeding tier anodization potential. Contact angle measurements show that the multitiered branched PAA structures exhibit a marked increased in hydrophilicity over two-dimensional PAA films. [source]


Probing the supramolecular interaction synthons of 1-benzofuran-2,3-dicarboxylic acid in its monoanionic form

ACTA CRYSTALLOGRAPHICA SECTION C, Issue 1 2009
Rajesh Koner
1-Benzofuran-2,3-dicarboxylic acid (C10H6O5) is a dicarboxylic acid ligand which can readily engage in organometallic complexes with various metal ions. This ligand is characterized by an intramolecular hydrogen bond between the two carboxyl residues, and, as a monoanionic species, readily forms supramolecular adducts with different organic and inorganic cations. These are a 1:1 adduct with the dimethylammonium cation, namely dimethylammonium 3-carboxy-1-benzofuran-2-carboxylate, C2H8N+·C10H5O5,, (I), a 2:1 complex with Cu2+ ions in which four neutral imidazole molecules also coordinate the metal atom, namely bis(3-carboxy-1-benzofuran-2-carboxylato-,O3)tetrakis(1H -imidazole-,N3)copper(II), [Cu(C10H5O5)2(C3H4N2)4], (II), and a 4:1 adduct with [La(H2O)7]3+ ions, namely heptaaquabis(3-carboxy-1-benzofuran-2-carboxylato-,O3)lanthanum 3-carboxy-1-benzofuran-2-carboxylate 1-benzofuran-2,3-dicarboxylic acid solvate tetrahydrate, [La(C10H5O5)2(H2O)7](C10H5O5)·C10H6O5·4H2O, (III). In the crystal structure, complex (II) resides on inversion centres, while complex (III) resides on axes of twofold rotation. The crystal packing in all three structures reveals ,,, stacking interactions between the planar aromatic benzofuran residues, as well as hydrogen bonding between the components. The significance of this study lies in the first crystallographic characterization of the title framework, which consistently exhibits the presence of an intramolecular hydrogen bond and a consequent monoanionic-only nature. It shows further that the anion can coordinate readily to metal cations as a ligand, as well as acting as a monovalent counter-ion. Finally, the aromaticity of the flat benzofuran residue provides an additional supramolecular synthon that directs and facilitates the crystal packing of compounds (I),(III). [source]


Conformational flexibility in the flap domains of ligand-free HIV protease

ACTA CRYSTALLOGRAPHICA SECTION D, Issue 8 2007
Holly Heaslet
The crystal structures of wild-type HIV protease (HIV PR) in the absence of substrate or inhibitor in two related crystal forms at 1.4 and 2.15,Å resolution are reported. In one crystal form HIV PR adopts an `open' conformation with a 7.7,Å separation between the tips of the flaps in the homodimer. In the other crystal form the tips of the flaps are `curled' towards the 80s loop, forming contacts across the local twofold axis. The 2.3,Å resolution crystal structure of a sixfold mutant of HIV PR in the absence of substrate or inhibitor is also reported. The mutant HIV PR, which evolved in response to treatment with the potent inhibitor TL-3, contains six point mutations relative to the wild-type enzyme (L24I, M46I, F53L, L63P, V77I, V82A). In this structure the flaps also adopt a `curled' conformation, but are separated and not in contact. Comparison of the apo structures to those with TL-3 bound demonstrates the extent of conformational change induced by inhibitor binding, which includes reorganization of the packing between twofold-related flaps. Further comparison with six other apo HIV PR structures reveals that the `open' and `curled' conformations define two distinct families in HIV PR. These conformational states include hinge motion of residues at either end of the flaps, opening and closing the entire ,-loop, and translational motion of the flap normal to the dimer twofold axis and relative to the 80s loop. The alternate conformations also entail changes in the ,-turn at the tip of the flap. These observations provide insight into the plasticity of the flap domains, the nature of their motions and their critical role in binding substrates and inhibitors. [source]


Structures of two superoxide dismutases from Bacillus anthracis reveal a novel active centre

ACTA CRYSTALLOGRAPHICA SECTION F (ELECTRONIC), Issue 7 2005
Ian W. Boucher
The BA4499 and BA5696 genes of Bacillus anthracis encode proteins homologous to manganese superoxide dismutase, suggesting that this organism has an expanded repertoire of antioxidant proteins. Differences in metal specificity and quaternary structure between the dismutases of prokaryotes and higher eukaryotes may be exploited in the development of therapeutic antibacterial compounds. Here, the crystal structure of two Mn superoxide dismutases from B. anthracis solved to high resolution are reported. Comparison of their structures reveals that a highly conserved residue near the active centre is substituted in one of the proteins and that this is a characteristic feature of superoxide dismutases from the B. cereus/B. anthracis/B. thuringiensis group of organisms. [source]