Crystallization and Preliminary Crystallographic Studies of Luffaculin 1,a Ribosome-inactivating Protein from the Seeds of Luffa Acutangula

1 INTRODUCTION The ribosome-inactivating proteins (RIPs) are RNA N-glycosidases[1, 2] which inactivate ribosomes by cleaving a single N–C glycosidic bond between adenine and ribose at A4324 in the 28s rRNA of rat. Because of the removal of one adenine from rRNA, elongation factorⅡ(EF-2) can not bind to the 60S subunit, so RIPs can arrest protein synthesis. RIPs can be classified into three types based on the struc- tures of genes and mature proteins[3]. Type 1 RIPs with molec…     

Studies on the crystal structure of A1-(D-Tryptophan) insulin

We have determined the crystal structure of A1-(D-Trp) insulin and discovered that it belongs to the trigonal system with space group R3. The parameters of the unit cell are a = b = 78.6 A, c = 50.0 A. A set of data for half a sphere reciprocal space to a spacing of 2.2 A were collected. The model was adjusted and refined by using a step-by-step approach and a stereochemically-restrained least squares program, assisted by manual revision based on the difference Fourier maps, to a final R-factor of 0.218. The main and side chains of both A1-D-Trp residues in the asymmetric unit are well ordered. The packing of A1-(D-Trp) insulin in the unit cell, the conformational differences with other insulin structures and its structure and function relationship have also been discussed.     

Unit cell group analysis of rare earth elpasolites

Vibrational frequencies of rare earth elpasolites, with general formula M₂ALnX₆ (M=Cs, Rb; A=K, Na, Li; Ln=lanthanide element or yttrium; X=I, Br, Cl, F) have been determined from Raman spectroscopy and electronic absorption and emission spectra, at temperatures down to 10 K. A compilation has been made together with available literature data. The 10 unit cell group vibrational frequencies have been satisfactorily fitted by using a modified valence force field. The trends in the derived force constants are reasonable from a physical viewpoint.     

Preliminary crystallographic analysis of deshexapeptide (B25-B30) insulin

Satisfactory single crystals of deshexapeptide (B25-B30) insulin for X-ray crystal structure analysis have been grown in citrate buffer by the method of hanging-drop gas phase diffusion. The crystal belongs to the monoclinic system with space group C2. The unit cell constants are a = 42.6 A, b = 37.9 A, c = 27.2 A, beta = 125.4 degrees and there is only one molecule of deshexapeptide insulin in an asymmetric unit.     

STUDIES ON THE CRYSTAL STRUCTURE OF Al-(D-TRYPTOPHAN) INSULIN

We have determined the crystal structure of Al-(D-Trp) insulin and discovered that it belongs to the trigonal system with space group R3. The parameters of the unit cell are a=b=78.6, c=50.0. A set of data for half a sphere reciprocal space to a spacing of 2.2 were collected. The model was adjusted and refined by using a step-by-step approach and a stereochemically-restrained least squares program, assisted by manual revision based on the difference Fourier maps, to a final R-factor of 0.218. The main and side chains of both Al-D-Trp residues in the asymmetric unit are well ordered. The packing of Al-(D-Trp) insulin in the unit cell, the conformational differences with other insulin structures and its structure and function relationship bave also been discussed.     

STUDIES ON THE CRYSTAL STRUCTURE OF Al-(L-TRYPTOPHAN) INSULIN AT 2.1RESOLUTION

In order to study the biological effect of alterations to the N-terminus of the insulin A-chain, we have determined the crystal structure of Al-(L-Trp) insulin and discovered that it belongs to the trigohal system with space group R3. The parameters oof the unit cell are a=b=80.3A, c=37.5A. The model was adjusted and refined by using a stereochemically-restrained least squares program, assisted by manual revision of the model based on the difference Fourier map, to a final R-factor of 0.195. The main and side chains of both Al-(L-Trp) residues in the asymmetric unit are well ordered. It was found that the Al-Trp residue of molecule I occupied two distinct positions. We have proposed from the results of the three-dimensional structure that the 4-zinc insulin hexameric form is a stored state of insulin molecules in a conformation of low activity. The structural details of the insulin molecule and its structure and function relationship have also been discussed.     

Density functional theory study on the structure and vibrational frequencies of glycylglycine

Eleven possible conformers of glycylglycine have been studied by using the BLYP, B3LYP methods of density functional theory and the HF method at the basis set of 6-311++G**. BLYP (using Becke's and Lee-Yang-Parr's correlation functionals), ab initio Hartree-Fock (HF) and hybrid DFT/HF B3LYP calculations have been carried out to study the structure and vibrational spectra of glycylglycine. Glycylglycine crystal structure has been determined by X-ray diffraction analysis. The title compound has been crystallizes in the orthorhombic space group C1, with Z=4. And the unit cell parameters are: a=8.1184(12)A, b=9.5542(14)A, c=7.8192(11)A and V=577.95(15)A(3). Molecular conformation calculations have got 11 possible conformers. In these possible conformers, the most stable one has been selected. The BLYP/6-311++G** and scaled HF/6-311++G** frequencies correspond well with available experimental assignments of the normal vibrational modes. Comparison of the observed fundamental vibrational frequencies of glycylglycine and calculated results by density functional B3LYP and Hartree-Fock (HF) methods indicates that B3LYP is superior to the scaled Hartree-Fock (HF) for molecular vibrational issues.     

去B链N端二肽(B_(1—2))猪胰岛素晶体结构的研究——单晶培养及X射线晶体学的分析

利用微量过饱和静置法,在柠檬酸缓冲液中培养出可供X射线结构分析用的去B链N端二肽(B_(1-2))猪胰岛素单晶。晶体衍射分辨率达到4.0A以上。晶体属于立方晶系,a=97.43A,空间群为P4_132(或P4_332),每个结晶学不对称单位含两个或三个去B链N端二肽(B_(1-2))猪胰岛素分子。本文对单位晶胞内六聚体之间和二聚体之间可能的堆积方式进行了讨论。     

Synthesis,crystal structure,and magnetic properties of an alkoxo-hydroxo-bridged octanuclear copper(II) complex showing chemically significant hydrogen-bonding interactions involving a metallamacrocyclic core

A novel 16-member metallamacrocyclic octanuclear copper(II) complex of formulation [Cu8L4(OH)4] (1) has been prepared from a reaction of [Cu2L(O2CMe)] and NaOH in methanol, where L is a pentadentate trianionic Schiff base ligand N,N'-(2-hydroxypropane-1,3-diyl)bis(salicylaldimine). The complex has been characterized by analytical, structural, and spectral methods. It crystallizes in the monoclinic space group C2/c with the following unit cell dimensions: a = 30.365(3) A; b = 14.320(2) A; c = 19.019(2) A; beta = 125.33(2) degrees; V = 6746.7(13) A3; Z = 4. A total of 4589 unique data with l > 2 sigma (l) were used to refine the structure to R1(F0) = 0.0525 and wR2 = 0.1156. The structure consists of four binuclear [Cu2L]+ units linked covalently by four hydroxide ligands to form an octanuclear core which is stabilized by strong hydrogen-bonding interactions involving the hydroxide ligands. Each binuclear unit has a pentadentate ligand L showing N2O3 coordination with an endogenous alkoxide bridging atom. The magnetic susceptibility data of 1, obtained in the temperature range 14-306 K, show the presence of antiferromagnetic exchange interactions between adjacent spin-1/2 Cu(II) ions. The mu eff values are 1.54 and 0.26 microB (per copper) at 295 and 15 K, respectively. The magnetic data have been theoretically fitted using a Heisenberg spin-1/2 Hamiltonian with nearest-neighbor antiferromagnetic interactions. The spin coupling in the metallamacrocyclic ring has been modeled using four different coupling constants (J) on the basis of the structural parameters of the octanuclear core. The coupling constants obtained are J1 = -318.8, J2 = -293.3, J3 = -111.6, and J4 = -63.8 cm-1. The theoretical modeling of the susceptibility data gives a higher magnitude of the antiferromagnetic interaction within the binuclear [Cu2L]+ unit compared to those involving adjacent dimeric units.     

Ab initio studies of the electronic structure of L-cysteine adsorbed on Ag(111)

We have performed ab initio calculations for the adsorption of L-cysteine on Ag(111) using density functional theory. We have focused on two possible adsorbed species: the L-cysteine radical (?S-CH(2)-CH-NH(2)-COOH) adsorbed almost flat at a bridge site, slightly displaced toward an fcc location, and the zwitterionic radical Z-cysteine (?S-CH(2)-CH-NH(3)(+)-COO(-)) adsorbed at a bridge site, shifted to a hcp site forming a (4 × 4) unit cell (θ = 0.06) and a (√3 × √3) R 30° unit cell (θ = 0.33), respectively. Special attention has been paid to the electronic structure of the system. The adsorbate-silver bond formation has been exhaustively investigated by analyzing the density of states projected onto the different atoms of the molecule, and by charge density difference calculations. A complicated interplay between sp and d states of silver in the formation of bonds between the adsorbates and the surface has been found. The role of the carboxyl group in the interaction with the surface has been also analyzed.     

延胡索乙素的晶体及分子结构

本文报导用直接法测定延胡索乙素游离碱的晶体结构。晶体所属的空间群为P2_12_12_1,每个单胞中含有四个分子,晶胞参数为a=22.296,b=11.795,c=7·452。用块对角矩阵最小二乘方对全部非氢原子坐标及其各向异性温度因子,对氢原子坐标及其各向同性温度因子进行修正,最后R因子为0.045。本文对于分子的某些结构特征作了讨论。     

P-derived organic cations as structure-directing agents: synthesis of a high-silica zeolite (ITQ-27) with a two-dimensional 12-ring channel system

Recently, efforts have been made to synthesize large-pore, multidimensional zeolite frameworks as a basis for new catalysts to improve various hydrocarbon conversions. A new aluminosilicate zeolite, ITQ-27, has been prepared using the phosphorus-containing structure-directing agent, dimethyldiphenylphosphonium. Its crystal structure was determined in its calcined form by direct methods (FOCUS) on synchrotron powder diffraction data (lambda = 0.8702 A) after the unit cell and space group were determined from tilt electron diffraction experiments on individual microcrystals. The material crystallizes in space group Fmmm, where a = 27.7508(5) A, b = 25.2969(7) A, and c = 13.7923(4) A. The final model, refined by Rietveld methods, comprises seven unique T-sites forming a framework with straight 12-MR channels that are connected by 14-MR openings between them. (Corresponding 12-ring pore dimension is 6.94 A x 6.20 A.) Since access from one 14-MR opening to the next is through the 12-MR channel, the structure is best described as a two-dimensional, 12-MR framework.     

Intervalence Electron Transfer in Mixed Valence Diferrocenylpolyenes. Decay Law of the Metal-Metal Coupling with Distance

A series of diferrocenylpolyenes of general formula Fc(CH=CH)(n)()Fc with n = 1-6 (Fc = ferrocenyl group) has been prepared and studied from the point of view of intervalence transitions in the mixed valence state. Well-resolved intervalence transitions are observed in dichloromethane upon partial electrolytic oxidation. Comproportionation constants have been determined from redox titration data and in some cases from electrochemical wave splitting. The corrected spectra of the mixed valence species have been deconvoluted to extract the parameters (position, intensity, width) of the intervalence bands, which allowed the determination of the metal-metal coupling (V(ab)) through the bridging unit using Hush's formula. The decay of V(ab) with distance is close to an exponential law with an exponent of 0.087 ?(-)(1), constituting one of the smallest attenuations reported so far. A small deviation to the exponential law is detected.     

Auto-assembling of ditopic macrocyclic lanthanide chelates with transition-metal ions. Rigid multimetallic high relaxivity contrast agents for magnetic resonance imaging

PhenHDO3A is a ditopic ligand featuring a tetraazacyclododecane unit substituted by three acetate arms and one 6-hydroxy-5,6-dihydro-1,10-phenanthroline group (PhenHDO3A = rel-10-[(5R,6R)-5,6-dihydro-6-hydroxy-1,10-phenantholin-5-yl)-1,4,7,10-tetraazacyclododecane-1,4,7-triacetic acid). This ligand was specially designed so as to obtain highly stable heteropolymetallic assemblies. PhenHDO3A has been prepared starting from phenanthroline epoxide and either a triprotected tetraazacyclododecane or tert-butyl triester of N,N',N' '-tetraazacyclododecane-triacetic acid. The latter yields PhenHDO3A in a single step. PhenHDO3A forms kinetically stable lanthanide complexes (acid-catalyzed kinetic constant kH = (1.2 +/- 0.2) x 10(-3) s(-1) M(-1)) whose solution structure has been deduced from a quantitative analysis of the paramagnetic shifts and the longitudinal relaxation times of the proton nuclei of YbPhenHDO3A. The alcohol group of the dihydro-phenanthroline unit remains coordinated to the encapsulated metal ion despite the steric crowding brought about by this group. Furthermore, the complexes are monohydrated, as shown by luminescence lifetime measurements on EuPhenHDO3A solutions. Relaxivity titrations at 20 MHz clearly indicate that the phenanthroline unit of GdPhenHDO3A is available for the spontaneous formation of highly stable tris complexes with the Fe2+ and Ni2+ ions. The water-exchange times and the rotational correlation times of GdPhenHDO3A and Fe(GdPhenHDO3A)32+ have been deduced from variable temperature 17O NMR studies and from nuclear relaxation dispersion curves. Despite rather slow water-exchange rates (taum0 = 1.0-1.2 x 10(-6) s), relaxivity gains of 90% have been observed upon the formation of the heterometallic tris complexes. The latter rotate about four times more slowly (taur0= 398 ps) than the monomeric unit (taur0 = 105 ps) and their relaxivity is, accordingly, twice as high. The relaxivity of the tris complexes between 10 and 50 MHz is comparable to relaxivities reported for Gd3+-containing dendrimers of much higher molecular weights. The high relaxivity of the tris-PhenHDO3A lanthanide complexes is attributed to their internal rigidity.     

The crystal structure of anhydrous beta-caffeine as determined from X-ray powder-diffraction data

The crystal structure of the low-temperature form of anhydrous caffeine has been determined by using X-ray powder-diffraction data with a combined simulated-annealing/Rietveld method. Anhydrous caffeine crystallizes with five crystallographically independent molecules in a monoclinic C-centred unit cell with dimensions of a=43.0390(17), b=15.0676(6) and c=6.95314(14) A and a beta angle of 99.027(2) degrees.     

Self-organisation in P-substituted guanidines leading to solution-state isomerisation

Different isomeric forms of the amidine unit have been identified in Ph2P(E)C[NR'][NHR'] (E = S, Se; R' = iPr, Cy), using both solid- and solution-state techniques.     

尼龙-1010结晶结构

用WAXD方法测定了Nylon-1010为三斜晶系结晶结构;α=4.9(?),b=5.4(?),c=27.8(?),α=49°,β=77°,γ=63.5°,每个聚合物单胞含有一个重复单元,空间群为P(?)。模压试样用Ruland方法分析结晶度为60％。以上。电子密度相关函数法分析了SAXS现象,求得了Nylon-1010结晶片层厚度、过渡层厚度、长周期、比内表面及电子密度差。     

Characterization and ab initio XRPD structure determination of a novel silicate with Vierer single chains: the crystal structure of NaYSi2O6

The crystal structure of a sodium yttrium silicate with composition NaYSi2O6 has been determined from laboratory X-ray powder diffraction data by simulated annealing, and has been subsequently refined with the Rietveld technique. The compound is monoclinic with space group P2(1)/c and unit cell parameters of a=5.40787(2) A, b=13.69784(5) A, c=7.58431(3) A, and beta=109.9140(3) degrees at 23.5 degrees C (Z=4). The structure was found to be a single-chain silicate with a chain periodicity of four. The two symmetry dependent [Si4O12] chains in the unit cell are parallel to c. A prominent feature is the strong folding of the crankshaft-like chains within the b,c-plane resulting in intrachain Si-Si-Si angles close to 90 degrees. The coordination of the Y3+ ions by O2- is 7-fold in the form of slightly irregular pentagonal bipyramids, with oxygen atoms from four different chains contributing to the coordination polyhedron. Na+ ions are irregularly coordinated by 10 oxygens from two neighboring chains. No disorder of Na+ and Y3+ between the two nontetrahedral cation sites could be observed. Furthermore, micro-Raman spectra have been obtained from the polycrystalline material.     

X-RAY SCATTERING STUDIES ON NYLON-1010

From Wide-Angle X-ray Scattering (WAXS) pattern of uniaxially orientated fibers, the crystal structure of Nylon-1010 was determined. The Nylon-1010 crystallizes in the triclinic system, with lattice dimensions: a=4.9A, b=5.4A, c=27.8, α=49 °, β=77 °,γ=63.5 °, the unit cell contains one monomeric unit and the space group is P. The degree of crystallinity of polymer was deter mined as about 60%, using Ruland's method.The structures of Nylon-1010 with different draw ratio have been investigated by using Small-Angle X-ray Scattering (SAXS). The results indicate that the draw ratio of samples has a significant effect on microstructure of Nylon-1010. The long period and thickness of amorphous layer obviously increase but the invariant, average lameUar and interphase zone show almost independent of draw ratio, long period increases because amorphous layer increases with draw ratio. The electron density fluctuation values increased with draw ratio, but inner surface O_s is drecreased.     

Autoionization of homogeneous nickel(II) diphosphane hydrogenation catalysts. An NMR study and crystal structures of [Ni(o-MeO-dppe)I2] and [Ni(o-MeO-dppe)I2](PF6)2

The synthesis of a number of nickel(II) complexes containing the didentate phosphane ligand 1,2-bis(di(o-methoxyphenyl)phosphino)ethane (o-MeO-dppe) is reported. Two types of complexes have been synthesized, i.e., the mono(chelate) complex (1) of the general formula [Ni(o-MeO-dppe)X2] (where X = Cl, Br or I) and the bis(chelate) complex (2) of the general formula [Ni(o-MeO-dppe)2]Y2 (where Y = PF6 or trifluoroacetate (TFA)). These complexes have been characterized using electronic absorption and NMR spectroscopy. The structures of the mono(chelate) complex [Ni(o-MeO-dppe)I2] (1c) and of the bis(chelate) complex [Ni(o-MeO-dppe)2](PF6)2 (2e) have been determined by X-ray crystallography. [Ni(o-MeO-dppe)I2] crystallizes in the monoclinic space group P2(1)/c with Z = 4, a = 12.1309(1) A, b = 16.5759(3) A, c = 17.6474(2) A, beta = 119.3250(10) degrees. [Ni(o-MeO-dppe)2](PF6)2 crystallizes in the monoclinic space group C2/c with Z = 4, a = 22.5326(3) A, b = 13.6794(2) A, c = 21.7134(3) A, beta = 107.1745(7) degrees. In both structures the nickel ion is in a square-planar geometry with a NiP2I2 and NiP4 chromophore, respectively. Using 1H and 31P[1H] NMR spectroscopy the behavior of the complexes in various solvents has been studied. It appears that in solution these nickel complexes are involved in an autoionization equilibrium: 2[Ni(o-MeO-dppe)X2] <==>[Ni(o-MeO-dppe)2](2+) + ["NiX(4)"](2-). The ionized complex (3) consists of a cationic unit in which a nickel atom is surrounded by two didentate phosphane ligands, and an anionic unit that stoichiometrically consists of a nickel atom and four anions. The position of the autoionization equilibrium is highly dependent on the anion and the solvent used. In a polar solvent in combination with weakly coordinating anions only the ionized complex is observed, whereas in an apolar solvent in combination with coordinating anions only the mono(chelate) complex occurs. A comparison of the behavior of o-MeO-dppe with its unsubstituted analogue dppe in combination with nickel(II) acetate using 31P[1H] NMR spectroscopy shows that the latter is more readily oxidized.