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cluspro algorithm  (Comeau Technique)

 
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    Comeau Technique cluspro algorithm
    Cluspro Algorithm, supplied by Comeau Technique, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/algorithms+cluspro/cluspro+server/pm33706107-113-17-19
    Average 90 stars, based on 1 article reviews
    cluspro algorithm - by Bioz Stars, 2026-10
    90/100 stars

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    Article Title: Excavating the surface-associated and secretory proteome of Mycobacterium leprae for identifying vaccines and diagnostic markers relevant immunodominant epitopes.
    Article Snippet: ClusPro 2.0 PIPER algorithm − Protein–protein docking Comeau et al. (2004) 14.

    Article Title: ProtLID, a residue-based pharmacophore approach to identify cognate protein ligands in the Immunoglobulin Superfamily
    Article Snippet: Ligand prediction using docking algorithms ClusPro Each receptor was docked against each candidate structure using the ClusPro server ( http://cluspro.bu.edu ( Brenke et al., 2012 ; Comeau et al., 2004a , b ; Kozakov et al., 2013 ; Kozakov et al., 2006 )) with three different force fields: antigen:antibody (ab), enzyme:inhibitor (ei), and other (o).

    Article Title: Characterization of a unique conformational epitope on free immunoglobulin kappa light chains that is recognized by an antibody with therapeutic potential.
    Article Snippet: Rigid body molecular docking was performed with the ClusPro .0 algorithm (http://cluspro.bu.edu/) using K-1-21 as the recepor and chain B of the F LC non-covalent dimer, PDB: 1B6D, as the igand (Comeau et al., 2007).

    Article Title: Enhancing the binding of the β-sheet breaker peptide LPFFD to the amyloid-β fibrils by aromatic modifications: A molecular dynamics simulation study.
    Article Snippet: Alzheimer’s is a fatal neurodegenerative disease for which there is no cure at present.. The disease is characterized by the presence of plaques in the brains of a patient, which are composed mainly of aggregates of the amyloid-β peptide in the form of β-sheet fibrils.. Here, we investigated the possibility of exploiting the superior binding ability of aromatic amino acids to a particular model of the amyloid-β fibrils. which is a difficult target for drug design.

    Article Title: Characterization of a unique conformational epitope on free immunoglobulin kappa light chains that is recognized by an antibody with therapeutic potential.
    Article Snippet: The K-1-21 Fv model was then docked onto the noncovalent F LC dimer 1B6D with the ClusPro 2.0 algorithm (Comeau et al., 2007).

    Construct:

    Article Title: Study of recombinant antibody fragments and PAI-1 complexes combining protein-protein docking and results from site-directed mutagenesis.
    Article Snippet: .. The rigid-body docking approach of DOT (Ten Eyck et al., 1995; Mandell et al., 2001) and ZDOCK (Chen et al., 2003a, 2003b), implemented in the ClusPRO algorithm (Comeau et al., 2004), was used to construct models for scFv-8H9D4 and scFv-56A7C10 and each PAI-1 type. .. ClusPro is the only docking technology that claims to find near-native complex structures by using thermodynamics considerations (Comeau et al., 2005).



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    Table 2

    Journal: Structure (London, England : 1993)

    Article Title: ProtLID, a residue-based pharmacophore approach to identify cognate protein ligands in the Immunoglobulin Superfamily

    doi: 10.1016/j.str.2016.10.012

    Figure Lengend Snippet: Table 2

    Article Snippet: Ligand prediction using docking algorithms ClusPro Each receptor was docked against each candidate structure using the ClusPro server ( http://cluspro.bu.edu ( Brenke et al., 2012 ; Comeau et al., 2004a , b ; Kozakov et al., 2013 ; Kozakov et al., 2006 )) with three different force fields: antigen:antibody (ab), enzyme:inhibitor (ei), and other (o).

    Techniques: