Top PDF Protein structure analysis, prediction and flexibility in the light of a structural alphabet
Protein structure analysis, prediction and flexibility in the light of a structural alphabet
... 2fox_: JACKLMMMMMMMMMMMMM Tyagi M, Sharma P, Swamy CS, Cadet F, Srinivasan N, de Brevern AG, Offmann B (2006) Protein Block Expert (PBE): a web-based protein structure analysis server ...
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Species specific amino acid sequence - Protein local structure relationships: An analysis in the light of a structural alphabet
... Introduction The knowledge of three dimensional structures of proteins gives valuable insights into their ...functions. Prediction of different features of protein ...
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Species specific amino acid sequence-protein local structure relationships: An analysis in the light of a structural alphabet.: species‟ sequence - structure relationship
... Introduction The knowledge of three dimensional structures of proteins gives valuable insights into their ...functions. Prediction of different features of protein ...
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Exploring the potential of a structural alphabet-based tool for mining multiple target conformations and target flexibility insight
... involved in the maturation of the viral proteins [ 52 ...is a homodimer composed of 99 amino acids in each ...subunits and it is located at the ...
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New assessment of a structural alphabet.
... Conclusion. In this study, we verified that the PB definitions remain valid after the size of the databank more than tripled (from 86,628 [6] to 293,507 ...First, the ...
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Structural Alphabet: From a Local Point of View to a Global Description of Protein 3D Structures
... examine the relationship between the structural alphabet and the 3D structure ...topology. The results of our study are divided into three consecutive ...
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The unexpected structure of the designed protein Octarellin V.1 forms a challenge for protein structure prediction tools.
... Analyzing the experimental structure and comparing it with its de novo design ( ...4 a), we expected the first b-strand to be flanked by S2 and S8, but this is not the ...
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Mining protein loops using a structural alphabet and statistical exceptionality.
... developed a simple and accurate method that allows the description and analysis of the structures of short and long loops using structural motifs ...
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Use of a structural alphabet for analysis of short loops connecting repetitive structures.
... Protein structure descriptions that use a library or set of small prototypes, ...than the conven- tional three, can help improve definitions of these regions and may also ...
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Discrete analysis of camelid variable domains: sequences, structures, and in-silico structure prediction
... conformational analysis Secondary structures were assigned with the most widely used algorithm, namely DSSP (CMBI version 2000) with default parameters (Kabsch et Sander ...83). Protein Blocks (PBs) ...
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Structural deformation upon protein-protein interaction: A structural alphabet approach
... rmsd The structural alphabet provides a simplified but detailed description of the protein ...some structural letters have very similar conformation, e.g., ...
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Extension of a local backbone description using a structural alphabet: a new approach to the sequence-structure relationship.
... comprise a structural alphabet of 16 protein fragments, each 5 C ␣ ...approximate and correctly predict local protein three-dimensional (3D) ...selected the 72 most ...
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Global analysis of VHHs framework regions with a structural alphabet: VHH FRs structures
... Discussion In the recent years, antibody uses have shown an impressive success for biotechnological and biomedical applications ...Use of bioinformatics approaches is an essential tool for ...
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A Crystal Structure of the Dengue Virus NS5 Protein Reveals a Novel Inter-domain Interface Essential for Protein Flexibility and Virus Replication
... (B) Structure alignment of the homology models of NS5 from JEV, WNV, YFV, and TBEV based on DENV3 NS5 crystal structure (this work), at the interface ...Similarly, ...
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Développement d'un alphabet structural intégrant la flexibilité des structures protéiques
... represents the variability of the homomer across the chains, this variability being either due 201 to measurement uncertainty or to intrinsic ...on the small Heat Shock Proteins 202 ...
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Analysis of Protein Disorder Predictions in the Light of a Protein Structural Alphabet
... Evaluation of Disopred3 predictions at the light of N eq ...with the prediction rate (in red). The contribution of disordered and ordered positions ...
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In silico prediction of protein flexibility with local structure approach
... components of all living cells. They are composed of a succession of amino acids and their structures support directly their ...Developments of X-ray experiments have increased ...
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Computational approaches for the design and prediction of protein-protein interactions
... The first component contains the single-residue or "self" contributions of amino acid aa to the energy difference between the unfolded and folded states. This [r] ...
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Structural Determinants of Cold Adaptation and Stability in a Large Protein
... enthalpy of the psychrophilic ␣-amylase. It is generally agreed that the hydrophobic effect is the main factor in stabilizing folded conformations ...shown in Fig. 3 and ...
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Preparation and characterization of bacterial protein complexes for structural analysis
... ERSPECTIVES The expression, purification, and crystallization of protein complexes pose challenging problems, both technically and ...data and expand the list of ...
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