G-G base-pairing in nucleobase adducts of the anticancer drug cis-[PtCl2(NH3)(2-picoline)] and its trans isomer

cis-[PtCl2(NH3)(2-picoline)] (AMD473) is a sterically-hindered anticancer complex with a profile of chemical and biological activity that differs significantly from that of cisplatin. Adducts of AMD473 with neutral 9-ethylguanine (9-EtGH) and anionic (N1-deprotonated) 9-ethylguanine (9-EtG) as perchlorate and nitrate salts, and also a nitrate salt of the trans isomer (AMD443), were prepared and their structures determined by X-ray crystallography: cis-[Pt(NH3)(2-pic)(9-EtGH)2](ClO4)2 (1).2H(2)OMe(2)CO, cis-[Pt(NH3)(2-pic)(9-EtGH)2](NO3)2 (2).2H2O, cis-[Pt(NH3)(2-pic)(9-EtGH)(9-EtG)]NO3 (3),3.5 H2O, trans-[Pt(NH3)(2-pic)(9-EtGH)(9-EtG)]NO3 (4).8H2O. In all cases, platinum coordination is through N7 of neutral (1, 2) and anionic (3, 4) guanine. In each complex, the guanine bases are arranged in the head-to-tail conformation. In complex 1, there is an infinite array of six-molecule cycles, based on both hydrogen bonding and pi-pi stacking of the 2-picoline and guanine rings. Platinum(II) coordinated at N7 acidifies the N1 proton of neutral 9-ethylguanine (pKa = 9.57) to give pKa1 = 8.40 and pKa2 = 8.75 for complex 2, and pKa1 = 7.77 and pKa2 = 9.00 for complex 4. In complexes 3 and 4, three intermolecular hydrogen bonds are formed between neutral and deprotonated guanine ligands involving O6, N1 and N2 sites. Unusually, both of the platinated guanine bases of complexes 3 and 4 participate in this triple G triple bond G hydrogen bonding. This is the first report of X-ray crystal structures of nucleobase adducts of the promising anticancer drug AMD473.     

Carbon-Fluorine Bondings of Fluorinated Fullerene and Graphite

Carbon-fluorine bondings of fluorinated fullerenes and fluorine-graphite intercalation compound C_xF were investigated in detail on the basis of XPS data and the potential model using the charge distribution calculated by semiempirical method. It has been confirmed by the present study that two peaks in the C_1s spectra observed for fluorinated fullerenes are assigned to carbon atoms bonded to fluorine atoms and those unbound to fluorine atoms, and the small difference in charges and Madelung potentials of fluorine atoms in different circumstances well explains the single peak in F_1s spectra of fluorinated fullerenes. In the calculated structures of 1,3-C₆₀F₂ and 1,2-C₆₀F_x (x = 2?6) used as the models of C_xF, three kinds of carbon-fluorine bondings were observed corresponding to nearly ionic, semicovalent and covalent C? F bondings. The calculated result supports that the bi-intercalation structure of stage 1 C_xF consists of nearly ionic and semi-covalent fluorines.     

Electronic structure and chemical bonding in K<Subscript>2</Subscript>V<Subscript>3</Subscript>O<Subscript>8</Subscript>

The calculations of the electronic structure of layered polyvanadate K₂V₃O₈ were made employing the spin-polarized tight-binding LMTO method. Calculated magnetic moment for K₄V₆O₁₆ compound phase equals 1.97 μ_B. V-O interactions were established to be dominating in the chemical bonding generation in this polyvanadate according to the estimated crystal orbital overlap population. The covalent bonds V(2)-V(2) in V(2)₂O₇ groups and electron density localization on vanadium atoms in isolated pyramids V(1)O₅ were found.     

A high-pressure mass spectrometric and density functional theory investigation of the thermochemical properties and structure of protonated dimers and trimers of glycine

A new modification of pulsed-ionization high-pressure mass spectrometry (PHPMS) has been used to perform equilibrium thermochemical studies for relatively nonvolatile biomolecules such as amino acids. Binding enthalpy and entropy changes have been measured for proton-bound clusters of glycine, which are in good agreement with both theoretical (DFT) results of this work and a previous blackbody infrared dissociation experiment. Experimental data indicate that a number of conformers of the proton-bound dimer of glycine may coexist in the explored temperature range (360-460 K). Several new, conceptually different isomers (two of them zwitterionic) have been found by DFT calculations, one of which is 7 kJ mol(-1) lower in energy than the structure previously reported to be the energy minimum.     

Beiträge zur Chemie der Halogensilan-Addukte. XXII. Wasserstoffbrückenbindung und Ionisierung Pentakoordinierter SiCl-Verbindungen. Darstellung,Eigenschaften, Kristall- und Molekülstruktur von 2,2-Dimethyl-2,3-dihydro-1H-[1,4,2]diazasilolo[4,5-α]pyridiniumchlorid-Chloroform(1/1),

Contributions to the Chemistry of Halosilane Adducts. XXII. Hydrogen Bonding and Ionization of Pentacoordinated Si-Compounds. Preparation, Properties, Crystal and Molecular Structure of 2,2-Dimethyl-2,3-dihydro-1H-[1,4,2]diazasilolo[4,5-α]pyridinium-chloride-Chloroform(1/1), The title compound ( 1 ) is obtained by the reaction of 2-trimethylsilylaminopyridine and Me₂CH₂ClSiCl in CHCl₃. The SiCl bond is ionic (X-ray structure determination). 1 crystallizes monoclinic space group P2₁/c (Z = 8). The asymmetric unit contains two symmetrically nonequivalent molecular cations of 1 , two Cl anions and two CHCl₃. Silicon is tetracoordinate with Si? N-bond distances of 1.766 Å and 1.777 Å. The shortest SiCl distances (3.908 and 4.110 Å) correspond to ionic interactions. Both Cl anions are hydrogen bonded to CHC1₃. Additionally one C1_? is hydrogen bonded to the NH groups of two neighbouring cations. Structural comparison with related compounds suggests these interactions to be responsible for the transition from pentacoordination to tetracoordination at Si (ionization of the Sic1 bond). ¹H- and ²⁹Si-NMR investigations of 1 show this transition to be dependent on the combined effect of NH…?C1^? and C1₃CH…?C1_? interactions. 1 is completely ionized in CDCl₃ in the temperature range ?80° to +80°C while in the weaker acceptor solvent benzonitrile a temperature dependent shift from the ionic tetracoordinate to the pentacoordinate structure is observed with increasing pentacoordination with increase of temperature.     

Crystal structure of tetraethylammonium fluoride-water (4/11), 4(C2H5)4N+F− · 11H2O,a clathrate hydrate containing linear chains of edge-sharing (H2O)4F− tetrahedra and bridging water molecules

Crystals of 4(C₂H₅)₄N⁺F^– · 11H₂O are orthorhombic, space groupPna2₁, witha=16.130(3),b=16.949(7),c=17.493(7) Å, andZ=4. The structure was shown to be a clathrate hydrate containing infinite chains of edge-sharing (H₂O)₄F^– tetrahedra extending parallel to thea axis. The chains are laterally linked by bridging water molecules to form a three-dimensional hydrogen-bonded anion/water framework. The ordered (C₂H₅)₄N⁺ cations occupy the voids in two open channel systems running in theb andc directions. FinalR _F =0.091 for 2278 observed MoK data measured at 22°C. Supplementary Data: relating to this article are deposited with the British Library as Supplementary Publication No. SUP 82010 (20 pages).Dedicated to Professor H. M. Powell.     

NMR chemical shifts in the low–pH form of a-chymotrypsin. A QM/MM and ONIOM–NMR study

 The relationship between hydrogen bonding and NMR chemical shifts in the catalytic triad of low-pH α-chymotrypsin is investigated by combined use of the effective fragment potential [(2001) J Phys Chem A 105:293] and ONIOM–NMR [(2000) Chem Phys Lett 317:589] methods. Our study shows that while the His57 N^δ1−H bond is stretched by a relatively modest amount (to about 1.060 ?) this lengthening, combined with the polarization due to the molecular environment, is sufficient to explain the experimentally observed chemical shifts of 18.2 ppm. Furthermore, the unusual down-field shift of H^ɛ1 (9.2 ppm) observed experimentally is reproduced and shown to be induced by interactions with the C=O group of Ser214 as previously postulated. The free-energy cost of moving H^δ1 from His57 to Asp102 is predicted to be 5.5 kcal/mol. Received: 26 September 2001 / Accepted: 6 September 2002 / Published online: 21 January 2003 Contribution to the Proceedings of the Symposium on Combined QM/MM Methods at the 222nd National Meeting of the American Chemical Society, 2001 Correspondence to: J. H. Jensen e-mail: jan-jensen@uiowa.edu Acknowledgements. This work was supported by a Research Innovation Award from the Research Corporation and a type G starter grant from the Petroleum Research Fund. The calculations were performed on IBM RS/6000 workstations obtained through a CRIF grant from the NSF (CHE-9974502) and on supercomputers at the National Center for Supercomputer Applications at Urbana-Champaign. The authors are indebted to Visvaldas Kairys for help with the CHARMM program, and to Daniel Quinn for many helpful discussions.     

Orientational effects of β-cyclodextrins on electron transfer between metal complexes in solution

The kinetics of the electron transfer reaction between pentammine-(4,4bipyridine)ruthenium(II) and cyclohexyldiamine-N,N,N,N-tetraacetatocobaltate(III) has been studied in unsubstituted and substituted -cyclodextrin solutions. The increased ion-pairing and the decreased electron transfer rates that result when the ruthenium complex are encapsulated by cyclodextrins are interpreted in terms of hydrogen bonding between cyclodextrin and the metal complexes markedly stabilizing the ionpair.Presented at the Symposium 76^th CSC Congress, Sherbrooke, Quebec, May 30–June 3, 1993, honoring Professor Donald Patterson on the occasion of his 65^th birthday.     

Synthesis and crystal structure ofN,N′-DicyclohexylpiperazineN,N′-dioxide octahydrate

N,N-DicyclohexylpiperazineN,N-dioxide octahydrate, C₁₆H₄₆N₂O₁₀,M _r=426.55, monoclinic, space groupC2/m (No. 12),a=12.961(4),b=11.533(4),c=7.907(1) Å, =98.37(2)^o,V=1169.3(6) ų,Z=2. The structure was solved by the direct method and refined toR=0.045 for 1192 observed MoK reflections. TheN,N-dioxide molecule occupies a site of symmetry 2/m. The piperazine ring takes the chair form with the two N–O bonds oriented axially in atrans configuration. Hydrogen bonding between the water molecules, as well as between theN-oxide groups and water molecules, gives rise to a puckered layer composed of edge-sharing four-membered, five-membered, six-membered, and eight-membered rings. Adjacent layers are cross-linked by theN,N-dicyclohexylpiperazine moieties lying between them, thereby generating a sandwich structure consolidated by covalent and hydrogen bonding. Supplementary Data relating to this article are deposited with the British Library as Supplementary Publication No. SUP 82062 (8 pages).     

Local dense structural heterogeneities in liquid water from ambient to 300 MPa pressure: evidence for multiple liquid-liquid transitions.

Difference and double-difference near-infrared DO-D and HO-H stretching overtone (2nuOD and 2nuOH) spectroscopy and a rigorous (physically substantiated) band deconvolution technique were applied to reveal three different kinds of inherent (interstitial) structures of liquid water, which determine its high density (compared to ice lh under ambient conditions), its compressibility (under hydrostatic pressure, up to 300MPa), and its high fragility (manifested under temperature variation). Our data processing allowed the rigorous discrimination of up to six vibrational components. On the basis of an extensive comparative analysis combined with available structural data (X-ray and neutron scattering) and molecular dynamics (MD) simulations for liquid water, as well as with experimental and computed data for small non-tetrahedrally arranged water clusters, the major four components could be ascribed to: i) The basic lh icelike substructure; ii) the temperature-dependent remote interstitial "defects" due to tetrahedral displacements (primarily responsible for transport properties); iii) the interstitial "defects" most probably arranged in quasiplanar noncyclic tetramers (totally absent in the ice structure); and iv) the interstitial "defects" formed with increasing pressure, probably arranged in cubic water octamers and composed of two pairs of noncyclic and cyclic tetramer fragments. The latter structures include, essentially, bent hydrogen bonds stabilized by resonance effects.