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  • Peptide
  • First, we have analyzed the sequence-structure-antigenicity correlations of the third variable (V3) loop of gp120 both as a cyclic 35 amino acid long peptide and in the context of the native gp120. (dtic.mil)
  • homologous
  • Jones was involved in the early stage of development of the CATH database, with Christine Orengo and Janet Thornton which is a hierarchical domain classification of protein structures in the Protein Data Bank, where the 4 major levels in hierarchy are: Class, Architecture, Topology, and Homologous superfamily. (wikipedia.org)
  • Structures
  • This book explores the remarkable information correspondences and probability structures of proteins. (routledge.com)
  • The author explores protein sequences (primary structures), both individually and in sets (systems) with the help of probability and information tools. (routledge.com)
  • Provides annotated tandem repeat protein structures. (omictools.com)
  • RepeatsDB includes high quality annotations for ∼5400 protein structures. (omictools.com)
  • citation needed] THREADER provides a method is popularly known as protein fold recognition (threading), a method of protein modeling, which is used to model those proteins which have the same fold as proteins of known structures. (wikipedia.org)
  • The degree of compatibility between the sequence and the proposed structure is evaluated by means of set of empirical potentials derived from proteins of known structures. (wikipedia.org)
  • He is currently well known for developing approaches to predict macromolecular structures, having participated in many Critical Assessment of Techniques for Protein Structure Prediction (CASP) competitions, where he criticised molecular dynamics for inability to refine protein structures. (wikipedia.org)
  • page needed] De Novo synthesis of protein benefits from knowledge of existing protein structures. (wikipedia.org)
  • probabilistic
  • Probabilistic models are becoming increasingly important in analysing the huge amount of data being produced by large-scale DNA -sequencing efforts such as the Human Genome Project. (onlinebookplace.com)
  • This book gives a unified, up-to-date and self-contained account, with a Bayesian slant, of such methods, and more generally to probabilistic methods of sequence analysis. (onlinebookplace.com)
  • recognition
  • In pathogenic family members, glycan-associated proteins are often linked to functions that include virulence, protein conformation maintenance, surface recognition, cell adhesion, and immune system evasion. (hindawi.com)
  • GenTHREADER is a faster and more powerful tool for protein fold recognition, that can be applied to either whole/individual protein sequences. (wikipedia.org)
  • It is a young discipline, with much research taking place into the understanding of protein folding and recognition for protein design principles. (wikipedia.org)
  • SR proteins are ~200-600 amino acids in length and composed of two domains, the RNA recognition motif (RRM) region and the RS domain. (wikipedia.org)
  • interactions
  • The metric is locally maximized on the holistic level of protein interactions, and connectivity constraints on the domain level are used to account for the exclusive and thus inherently combinatorial nature of the interactions within such assemblies. (omictools.com)
  • An understanding of the mechanism of virus-cell interactions requires quantitative analyses of the structure-function correlations of the surface epitopes on gp120 which contains several constant (C) and variable (V) subdomains linked as C1-V1-V2-C2-V3-C3-V4-C4-V5-C5. (dtic.mil)
  • RS domains regulate protein-protein interactions of SR proteins. (wikipedia.org)
  • The RRM domain mediates the RNA interactions of the SR proteins by binding to exon splicing enhancer sequences. (wikipedia.org)
  • polypeptide
  • A 170-kDa glycosylated protein known as the EGF receptor binds to TGF-α allowing the polypeptide to function in various signaling pathways. (wikipedia.org)