Descripción: This work describes simple decompositions of the energy of molecular systems according to schemes that partition the three-dimensional space. The components of those decompositions depend on one and two atomic domains thus providing a meaningful chemical information about the nature of different bondings among the atoms which compose the system. Our algorithms can be applied at any level of theory (correlated or uncorrelated wave functions). The results reported here, obtained at the Hartree-Fock level in selected molecules, show a good agreement with the chemical picture of molecules and require a low computational cost in comparison with other previously reported decompositions.

Descripción: This work describes a simple spatial decomposition of the first-order reduced density matrix corresponding to an N -electron system into first-order density matrices, each of them associated to an atomic domain defined in the theory of atoms in molecules. A study of the representability of the density matrices arisen from this decomposition is reported and analyzed. An appropriate treatment of the eigenvectors of the matrices defined over atomic domains or over unions of these domains allows one to describe satisfactorily molecular properties and chemical bondings within a determined molecule and among its fragments. Numerical determinations, performed in selected molecules, confirm the reliability of our proposal. © 2005 American Institute of Physics.

Descripción: The crystal structure of the title compound, C12H8-N2O6S, has been determined by single-crystal X-ray diffraction. The compound crystallizes in the noncentrosymmetric P21 space group. The substituted aromatic ring has a slightly deformed boat conformation. The ο-NO2 and p-NO2 groups are twisted out of the plane of the phenyl ring. The unsubstituted aromatic ring is planar and the dihedral angle between the mean plane of the rings is 71.1 (2)○. Short C - H⋯O intermolecular contacts stabilize the three-dimensional structure.

Descripción: This work studies the partitioning of the electron density into two contributions which are interpreted as the paired and the effectively unpaired electron densities. The topological features of each density field as well as of the total density are described localizing the corresponding critical points in simple selected molecules (local formalism). The results show that unpaired electron-density concentrations occur out of the topological bonding regions whereas the paired electron densities present accumulations inside those regions. A comparison of these results with those arising from population analysis techniques (nonlocal or integrated formalisms) is reported. © 2005 American Institute of Physics.

Descripción: The excited states of the double hydrogen bond in the adenine-thymine nucleotide base pair has been investigated in the semiempirical CNDO/S-CI approximation. Double-minimum potential curves are obtained for several nuclear configurations characterizing simultaneous tautomeric rearrangements of the NH⋯N and O⋯HN bonds. The energy profiles for the coupled movement of the hydrogen bonding show that the Watson-Crick configuration of the adenine-thymine base pair is the most stable for all of the excited states studied. Estimates are made within the WKB approximation of the tunneling rate and tunneling probability. The results indicate that increasing the energy of the excited states would increase the probability of double protonic transfer by tunnel effect and thus for irreversible mutation. A comparison of the composition of the potentials for the single movement of the protons with the double-minimum potential of the concerted movement shows that the potential is nonseparable. The shortcomings that follow from the WKB approximation as applied to the present problem are discussed. © 1981 American Chemical Society.

Descripción: Proximity effects on 1J(CH) couplings are studied from a theoretical point of view in the following systems: CH4/FH (A) and H2O/HCN (B) which form dimers by hydrogen-bond interactions. 1J(CH) couplings for different intermolecular distances are calculated for the C - H bond facing the atom bearing lone pairs. While in the former system, this coupling is increased owing to the proximity to the F atom; in the latter this coupling is decreased owing to the proximity to the O atom. These opposite trends are accompanied by slight shortening and lengthening, respectively, of the corresponding C - H bond lengths. As part of this work, measurements of 1J(CH) couplings in 9-(1,3-dioxolan-2-yl)-1,2,3,4-tetrafluorotriptycene (I) and 1-formyl-2-hydroxy-8-fluoronaphthalene (II) and 1J(NH) in o-fluorobenzamide (III), showing proximity effects as those described above are carried out. These results suggest that 1J(XH) couplings are adequate probes to distinguish two different types of X-H⋯Y hydrogen bonds. © 1994 American Chemical Society.

Descripción: Two copper complex solvatomorphs, namely (3,10-C-meso-3,5,7,7,10,12,14,14- octamethyl-1,4,8,11-tetraazacyclotetradecane)bis(perchlorato-κO)copper(II) 1.2-hydrate, [Cu(ClO4)2(C18H 40N4)]·1.2H2O, (I), and (3,10-C-meso-3,5,7,7,10,12,14,14-octamethyl-1,4,8,11-tetraazacyclotetradecane) bis(perchlorato-κO)copper(II), [Cu(ClO4)2(C 18H40N4)], (II), are described and compared with each other and with a third, already reported, anhydrous diastereomer, denoted (III). Both compounds present very similar centrosymmetic coordination environments, with the CuII cation lying on an inversion centre in a distorted 4+2 octahedral environment, defined by the macrocyclic N4 group in the equatorial sites and two perchlorate groups in trans-axial positions [one of the perchlorate ligands in (I) is partially disordered]. The most significant difference in molecular shape is seen in the orientation of the perchlorate anions, and the influence of this on the intramolecular hydrogen bonding is discussed. The (partially) hydrated state of (I) favours the formation of chains along [011], while the anhydrous character of (II) and (III) promotes loosely bound structures with low packing indices. © 2013 International Union of Crystallography.

Descripción: The title compound, tetrakis(μ-3,4,5-triethoxybenzoato κ 2 O:O′)bis[(pyrazine-κN)rhodium(II)](Rh-Rh). [Rh 2 (C 13 -H 17 O 5 ) 4 (C 4 H 4 N 2 ) 2 ], crystallizes on an inversion centre in the triclinic space group P1̄. The equatorial carboxylate ligands bridge the two Rh 11 atoms, giving a binuclear lantern-like structure. The pyrazine molecules occupy the two axial coordination sites. The phenyl rings are titled by ca 10° with respect to the attached carboxylate groups. The pyrazine planes have a torsion angle of ca 19° around the Rh-N bond with respect to the plane of the nearer carboxylate group and are not coplanar with the Rh-Rh bond.

Descripción: The three transition-metal complexes, (meso-5,7,7,12,14,14-hexa methyl-1,4,8,11-tetra azacyclo tetra decane-κ4 N)bis (perchlorato-κO)copper(II), [Cu(ClO4)2(C18H40N4)], (I), (meso-5,7,7,12,14,14-hexa methyl-1,4,8,11-tetra azacyclo tetra decane-κ4 N)bis (nitrato-κO)zinc(II), [Zn(NO3)2(C18H40N4)], (II), and aqua chlorido (meso-5,7,7,12,14,14-hexa methyl-1,4,8,11-tetraazacyclo tetra decane-κ4 N)copper(II) chloride, [CuCl(C18H40N4)(H2O)]Cl, (III), are described. The mol ecules display a very similarly distorted 4+2 octa hedral environment for the cation [located at an inversion centre in (I) and (II)], defined by the macrocycle N4 group in the equatorial sites and two further ligands in trans-axial positions [two O-ClO3 ligands in (I), two O-NO2 ligands in (II) and one chloride and one aqua ligand in (III)]. The most significant difference in mol ecular shape resides in these axial ligands, the effect of which on the intra- and inter molecular hydrogen bonding is discussed. In the case of (I), all strong hydrogen-bond donors are saturated in intra molecular inter actions, while weak inter molecular C - H⋯O contacts result in a three-dimensional network. In (II) and (III), instead, there are N - H and O - H donors left over for inter molecular inter actions, giving rise to the formation of strongly linked but weakly inter acting chains. © 2013 International Union of Crystallography.

Descripción: By taking advantage of the extreme stability of a protein-DNA complex, we have obtained two highly specific monoclonal antibodies against a predetermined palindromic DNA sequence corresponding to the binding site of the E2 transcriptional regulator of the human papillomavirus (HPV-16). The purified univalent antibody fragments bind to a double-stranded DNA oligonucleotide corresponding to the E2 binding site in solution with dissociation constants in the low and subnanomolar range. This affinity matches that of the natural DNA binding domain and is severalfold higher than the affinity of a homologous bovine E2 C-terminal domain (BPV-1) for the same DNA. These antibodies discriminate effectively among a number of double- and single-stranded synthetic DNAs with factors ranging from 125-to 20,000-fold the dissociation constant of the specific DNA sequence used in the immunogenic protein-DNA complex. Moreover, they are capable of fine specificity tuning, since they both bind less tightly to another HPV-16 E2 binding site, differing in only 1 base pair in a noncontact flexible region. Beyond the relevance of obtaining a specific anti-DNA response, these results provide a first glance at how DNA as an antigen is recognized specifically by an antibody. The accuracy of the spectroscopic method used for the binding analysis suggests that a detailed mechanistic analysis is attainable.