Engineering novel bioactive mini-proteins from small size natural and de novo designed scaffolds

Mini-proteins, polypeptides containing less than 100 amino acids, such as (animal toxins, protease inhibitors, knottins, zinc fingers, etc.) represent successful structural solutions to the need to express a specific binding activity in different biological contexts. Artificial mini-proteins have also been designed de novo, representing simplified versions of natural folds and containing natural or artificial connectivities. Both systems have been used as structural scaffolds in the engineering of novel binding activities, according to three main approaches: i) incorporation of functional protein epitopes into structurally compatible regions of mini-protein scaffolds; ii) random mutagenesis and functional selection of particular structural regions of mini-protein scaffolds; iii) minimization of protein domains by the use of sequence randomization and functional selection, combined with structural information, in an iterative process. These newly engineered mini-proteins, with specific and high binding affinities within a small size and well-defined three-dimensional structure, represent novel tools in biology, biotechnology and medical sciences. In addition, some of them can also be directly used in therapy or present high potential to serve as drugs. In all cases, they represent precious structural intermediates useful to identify frameworks for peptidomimetic design or directly lead to new small organic structures, representing novel drug candidates. The engineering of novel functional mini-proteins has the potential to become a fundamental step towards the conversion of a protein functional epitope or a flexible peptide lead into a classical pharmaceutical.     

Novel UDP-glycal derivatives as transition state analogue inhibitors of UDP-GlcNAc 2-epimerase

The "epimerisation" of UDP-GlcNAc to ManNAc, the first step in the biosynthesis of sialic acids, is catalyzed by UDP-GlcNAc 2-epimerase. In this paper we report the synthesis of transition state based inhibitors of this enzyme. To mimic the assumed first transition state of this reaction (TS 1), we designed and synthesized the novel UDP-exo-glycal derivatives 1-4. We also report herein the synthesis of 5 and 6, the first C-glycosidic derivatives of 2-acetamidoglucal, and the synthesis of the ketosides 7 and 8, which were designed as bis-substrate analogue and bis- product analogue, respectively, to mimic the second step of the reaction via the assumed second transition state TS 2.     

Additivity of the proton affinity of polysubstituted benzenes: the ipso position

It is shown, by the MP2(fc)/6-31G^{* *}/ /HF/6-31G^* +ZPE(HF/6-31G^*) theoretical model and concomitant use of homodesmic reactions, that the ipso proton affinities in polyfluorinated benzenes follow a simple additivity rule. Performance of the latter is good, as evidenced by a low average absolute deviation Δ_abs = 0.8 kcal/mol from the accurate ab initio results. Additional evidence supporting the additivity concept is provided by good accordance with the experimental proton affinity (PA) for perfluorobenzene. The present approach enables estimates of the ipso PAs of multiply substituted aromatics. It is particularly useful in those systems which involve or atomic groupings with lone pairs of electrons proximate to the aromatic π moiety. The additivity rule of thumb offers a simple rationalization of the ipso proton affinities. The origin of the PA additivity is briefly discussed.     

Structural Basis for Recognition of Guanosine by a Synthetic Tricyclic Cytosine Analogue: Guanidinium G‐Clamp

An oligonucleotide analogue containing a novel heterocyclic analogue, the guanidinium G‐clamp, was designed to allow formation of five H‐bonds to guanosine. The guanidinium group was introduced postsynthetically by treatment of the deprotected oligonucleotide containing a free amino group with a solution of 1H‐pyrazole‐1‐carboxamidine and purified by a combination of size‐exclusion chromatography and reversed‐phase HPLC. A single incorporation of this modification into an oligodeoxynucleotide sequence was found to increase duplex stability by 13° and 16° per modification to RNA and DNA, respectively. Crystals of a self‐complementary decamer sequence containing this modification were grown and diffracted to 1‐Å resolution. The structure was solved by molecular replacement and revealed that the modification forms additional H‐bonds to O(6) and N(7) of guanosine through the amino and imino N‐atoms, respectively. The origins of enhanced duplex stability are also attributed to increased stacking interactions mediated by the phenoxazine moiety of the G‐clamp and formation of H‐bond networks between the positively charged guanidinium group, H₂O molecules, and negatively charged O‐atoms from phosphates on the adjacent strand.     

New cationic aryldiazo,aryldiimine and arylhydrazine complexes of platinum

The preparation of some new cationic aryldiazo complexes of platinum of formula trans-[Pt(N₂Ar)(PEt₃)₂L]⁺, where N₂Ar = N₂C₆H₄F-m or -p and L = NH₃, Py, Et₃P or EtNC, is described. Protonation of these complexes gives the corresponding aryldiimide complexes trans-[Pt(NHNAr)(PEt₃)₂L]⁺, and reduction of the protonated complexes with molecular hydrogen in the presence of a catalyst gives the arylhydrazine complexes trans-[Pt(NH₂NHAr)(PEt₃)₂L]⁺. Some of the spectroscopic properties of these new complexes are reported and discussed.     

On an inconsistency connected with koopman's theorem

On the basis of Koopmans' theorem two methodically different ways to estimate the effect of a spin-orbit perturbation on the ionization potentials of I₂ have been proposed. In the present paper a model system is constructed to show the equivalence of both methods.     

Particle chaos in the Earth's magnetotail

Nonlinear particle dynamics is studied both in current sheets and near neutral lines. The parameter governing particle chaos in a current sheet with a constant normal component, B(n), is kappa=(R(min)/rho(max))(1/2), where R(min) is the minimum field line radius of curvature and rho(max) is the maximum gyroradius. In such a current sheet, motion can be viewed as a combination of a component normal to the current sheet and a tangential component. The parameter kappa represents the ratio of the characteristic time scale of the normal component to the tangential, and thus, particle chaos is maximized for kappa approximately 1. For kappa<1, the slow motion preserves the action integral of the fast motion, J(z), except near the separatrix, the phase space boundary separating motion that crosses the current sheet midplane from that which does not. Near a linear neutral line, it is found that the parameter b(n), which is the ratio of the characteristic vertical and horizontal field strengths, rather than kappa governs particle chaos. In the limit b(n)<1, the slow motion again preserves J(z), and J(z) has the same analytic form as in a constant B(n) current sheet. In the limit of b(n)<1, the structure of x-p(x) phase space is controlled by the stable and unstable manifolds associated with the unstable fixed point orbit at (x,p(x))=(0,0), and this structure lies along a contour of constant J(z).     

Aromatic hydrocarbon-carbonium ion molecular complexes

Molecular complexes of aromatic hydrocarbons and carbonium ions are described according to Mulliken's donor — acceptor theory. Estimations of electron affinities of several cations are deduced from charge-transfer transition energies and the indepently measured electron affinity of the tropylium ion.     

Ammoxidation of halogen-substituted toluenes on V-P-oxide catalysts

The ammoxidation of various halogen-substituted toluenes on crystalline vanadium phosphate catalysts was investigated. The monophosphates and the NH₄VOP₂O₇ are transformed into new NH₄-containing V-P-oxides. The (VO)₂P₂O₇ used is stable in time on stream. These structures are very active and selective ammoxidation catalysts.

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. NH₄VOP₂O₇ V-P , NH₄. (VO)₂P₂O₇ . .