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The tomato genome sequence provides insights into fleshy fruit evolution
A high-quality genome sequence of domesticated tomato is presented, a draft sequence of its closest wild relative, Solanum pimpinellifolium, is compared, and the two tomato genomes are compared to each other and to the potato genome.
Influence of the topology on the power flux of the Italian high-voltage electrical network
A model of the Italian 380 kV electrical transmission network has been analyzed under the topological and the functional viewpoints. The DC power flow model used to evaluate the power flux has been…
Improvement in prediction of solvent accessibility by probability profiles.
A new method for predicting solvent accessibility from single sequence and multiple alignment data is described, based on probability profiles calculated on an amino acid sequence centred on the residue whose accessibility has to be predicted.
Structural adaptation of enzymes to low temperatures.
A systematic comparative analysis of 21 psychrophilic enzymes belonging to different structural families from prokaryotic and eukaryotic organisms shows a clear tendency for the charged residues Arg and Glu to be replaced at exposed sites on alpha-helices by Lys and Ala, respectively, in the direction from 'hot' to 'cold' enzymes.
Comparative structural analysis of psychrophilic and meso‐ and thermophilic enzymes
- G. Gianese, F. Bossa, S. Pascarella
- ChemistryProteins: Structure, Function, and Bioinformatics
- 1 May 2002
Results reveal that each protein family adopts different structural strategies to adapt to low temperatures, and some common trends are observed: the number of ion pairs, the side‐chain contribution to the exposed surface, and the apolar fraction of the buried surface show a consistent decrease with decreasing optimal temperatures.
First Survey of the Wheat Chromosome 5A Composition through a Next Generation Sequencing Approach
This work used massively parallel 454 pyrosequencing to obtain a 2x coverage of wheat chromosome 5A and used the resulting sequence assembly to identify TEs, genes and miRNAs, as well as to infer a virtual gene order based on the synteny with other grass genomes.
Calcium-induced tertiary structure modifications of endo-beta-1,3-glucanase from Pyrococcus furiosus in 7.9 M guanidinium chloride.
The homology-based model of the enzyme is generated and used to predict the putative binding site(s) for calcium and the structural interactions potentially responsible for the unusual stability of this protein, in comparison with other family 16 glycoside hydrolases.
Structural plasticity of thermophilic serine hydroxymethyltransferases
- A. Paiardini, G. Gianese, F. Bossa, S. Pascarella
- Biology, ChemistryProteins: Structure, Function, and Bioinformatics
- 19 November 2002
The results of this study indicate that, in SHMT, thermal stability can be achieved mainly through three strategies: increased number of charged residues at the protein surface; increased hydrophobicity of the protein core; and substitution of thermolabile residues exposed to the solvent.
Atomic-scale modeling of the interaction between short polypeptides and carbon surfaces.
- G. Gianese, V. Rosato, F. Cleri, M. Celino, P. Morales
- ChemistryThe journal of physical chemistry. B
- 12 August 2009
It is suggested that the experimentally observed surface specificity of the peptide on nanotubes may depend on its capability to support multiple strongly bound configurations, which may enhance the intramolecular stability by forming new hydrogen bonds.
Understanding Structural/Functional Properties of Immunoconjugates for Cancer Therapy by Computational Approaches
- C. Arcangeli, C. Cantale, P. Galeffi, G. Gianese, R. Paparcone, V. Rosato
- Biology, ChemistryJournal of biomolecular structure & dynamics
- 1 August 2008
The proposed computational approach represents a promising tool for analyzing some physicochemical properties of immunoconjugates and for predicting the effects of the linked toxin on structure, dynamics, and functionality of the antibodies.