The indistinguishability of epitopes from protein surface is explained by the distinct binding preferences of each of the six antigen-binding loops

Computational Identification of Antigen-Binding Antibody Fragments

(2013) A. Burkovitz et al.   JOURNAL OF IMMUNOLOGY

A Systematic Comparison of Free and Bound Antibodies Reveals Binding-Related Conformational Changes

(2012) I. Sela-Culang et al.   JOURNAL OF IMMUNOLOGY

Antigen-binding site anatomy and somatic mutations in antibodies that recognize different types of antigens

(2012) Gopalan Raghunathan et al.   JOURNAL OF MOLECULAR RECOGNITION

Structural analysis of B-cell epitopes in antibody:protein complexes

(2012) Jens Vindahl Kringelum et al.   MOLECULAR IMMUNOLOGY

Paratome: an online tool for systematic identification of antigen-binding regions in antibodies based on sequence or structure

(2012) Vered Kunik et al.   NUCLEIC ACIDS RESEARCH

Structural basis for germ-line gene usage of a potent class of antibodies targeting the CD4-binding site of HIV-1 gp120

(2012) Anthony P. West et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Computer-aided antibody design

(2012) D. Kuroda et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Structural Consensus among Antibodies Defines the Antigen Binding Site

(2012) Vered Kunik et al.   PLoS Computational Biology

Antibody-Specified B-Cell Epitope Prediction in Line with the Principle of Context-Awareness

(2011) Liang Zhao et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

A New Clustering of Antibody CDR Loop Conformations

(2010) Benjamin North et al.   JOURNAL OF MOLECULAR BIOLOGY

A generic approach to evaluate how B-cell epitopes are surface-exposed on protein structures

(2010) Virginie Lollier et al.   MOLECULAR IMMUNOLOGY

Use of amino acid composition to predict epitope residues of individual antibodies

(2010) Shinji Soga et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Mining for the antibody-antigen interacting associations that predict the B cell epitopes

(2010) Liang Zhao et al.   BMC STRUCTURAL BIOLOGY

Identifying Hubs in Protein Interaction Networks

(2009) Ravishankar R. Vallabhajosyula et al.   PLoS One

Principles of Protein−Protein Interactions: What are the Preferred Ways For Proteins To Interact?

(2008) Ozlem Keskin et al.   CHEMICAL REVIEWS

The Intrinsic Contributions of Tyrosine, Serine, Glycine and Arginine to the Affinity and Specificity of Antibodies

(2008) Sara Birtalan et al.   JOURNAL OF MOLECULAR BIOLOGY

Affinity maturation of antibodies assisted byin silicomodeling

(2008) Rodrigo Barderas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural classification of CDR-H3 revisited: A lesson in antibody modeling

(2008) Daisuke Kuroda et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Computational characterization of B-cell epitopes

(2007) Nimrod D. Rubinstein et al.   MOLECULAR IMMUNOLOGY

Benchmarking B cell epitope prediction: Underperformance of existing methods

(2004) Martin J. Blythe et al.   PROTEIN SCIENCE