(Q34183601)

English

Modeling the Binding Sites of Anti-Hen Egg White Lysozyme Antibodies HyHEL-8 and HyHEL-26: An Insight into the Molecular Basis of Antibody Cross-Reactivity and Specificity

scientific article published on November 1, 2003

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scholarly article

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Europe PubMed Central

PubMed publication ID

31 July 2017

Modeling the binding sites of anti-hen egg white lysozyme antibodies HyHEL-8 and HyHEL-26: an insight into the molecular basis of antibody cross-reactivity and specificity (English)

1 reference

Europe PubMed Central

PubMed publication ID

31 July 2017

Modeling the Binding Sites of Anti-Hen Egg White Lysozyme Antibodies HyHEL-8 and HyHEL-26: An Insight into the Molecular Basis of Antibody Cross-Reactivity and Specificity (English)

1 reference

10.1016/S0006-3495(03)74740-7

https://api.crossref.org/works/10.1016/S0006-3495(03)74740-7

25 March 2024

1 reference

based on heuristic

inferred from title

antibody specificity

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A14581222

25 March 2024

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25 March 2024

molecular model

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25 March 2024

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10.1016/S0006-3495(03)74740-7

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25 March 2024

author name string

Neeti Sinha

2

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31 July 2017

S. Mohan

1

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A14581222

25 March 2024

Sandra J. Smith-Gill

3

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25 March 2024

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publication date

1 November 2003

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31 July 2017

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http://www.cell.com/article/S0006349503747407/pdf

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25 March 2024

https://europepmc.org/articles/PMC1303598

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Europe PubMed Central

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25 March 2024

https://europepmc.org/articles/PMC1303598?pdf=render

Portable Document Format

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Europe PubMed Central

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Europe PubMed Central

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25 March 2024

https://api.elsevier.com/content/article/PII:S0006349503747407?httpAccept=text/xml

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10.1016/S0006-3495(03)74740-7

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25 March 2024

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10.1016/S0006-3495(03)74740-7

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25 March 2024

Biophysical Journal

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31 July 2017

85

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Europe PubMed Central

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31 July 2017

5

1 reference

Europe PubMed Central

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31 July 2017

3221-3236

1 reference

Europe PubMed Central

PubMed publication ID

31 July 2017

X-ray snapshots of the maturation of an antibody response to a protein antigen

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Improved amino acid flexibility parameters

1 reference

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5 July 2018

Differences in electrostatic properties at antibody-antigen binding sites: implications for specificity and cross-reactivity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Electrostatics in protein binding and function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Protein structure to function via dynamics.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

How do two unrelated antibodies, HyHEL-10 and F9.13.7, recognize the same epitope of hen egg-white lysozyme?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Aspartyl tRNA-synthetase from Escherichia coli: flexibility and adaptability to the substrates

1 reference

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5 July 2018

Three-dimensional structures of the free and antigen-bound Fab from monoclonal antilysozyme antibody HyHEL-63(,)

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Experimental design for analysis of complex kinetics using surface plasmon resonance

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Convergent solutions to binding at a protein-protein interface

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Wet and dry interfaces: the role of solvent in protein-protein and protein-DNA recognition

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Crystal structure of anti-Hen egg white lysozyme antibody (HyHEL-10) Fv-antigen complex. Local structural changes in the protein antigen and water-mediated interactions of Fv-antigen and light chain-heavy chain interfaces

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Energetic analysis of an antigen/antibody interface: alanine scanning mutagenesis and double mutant cycles on the HyHEL-10/lysozyme interaction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Conformational isomers of a class II MHC-peptide complex in solution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

The atomic structure of protein-protein recognition sites

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

The stability of salt bridges at high temperatures: implications for hyperthermophilic proteins

1 reference

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5 July 2018

Effects of salt bridges on protein structure and design.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Quantitative evaluation of the chicken lysozyme epitope in the HyHEL-10 Fab complex: free energies and kinetics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Standard conformations for the canonical structures of immunoglobulins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Significant role of electrostatic interactions for stabilization of protein assemblies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

The rational construction of an antibody against cystatin: lessons from the crystal structure of an artificial Fab fragment

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Structural insights into the evolution of an antibody combining site

1 reference

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5 July 2018

Structural consequences of humanizing an antibody

1 reference

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5 July 2018

Structural and affinity studies of IgM polyreactive natural autoantibodies.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Probing the determinants of protein stability: comparison of class A beta-lactamases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Structural families in loops of homologous proteins: automatic classification, modelling and application to antibodies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Structural model of the anti-snake-toxin antibody, M alpha 2,3.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Antibody-antigen interactions: contact analysis and binding site topography.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

The crystal structures of complexes formed between lysozyme and antibody fragments.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Determinants of polyreactivity in a large panel of recombinant human antibodies from HIV-1 infection.

1 reference

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5 July 2018

Protein-protein interfaces: architectures and interactions in protein-protein interfaces and in protein cores. Their similarities and differences

1 reference

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5 July 2018

1.85 A structure of anti-fluorescein 4-4-20 Fab

1 reference

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5 July 2018

Length distribution of CDRH3 in antibodies

1 reference

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5 July 2018

Conservation of binding site geometry among p-azophenylarsonate-specific antibodies.

1 reference

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5 July 2018

Three-dimensional structure of a heteroclitic antigen-antibody cross-reaction complex

1 reference

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5 July 2018

Biased probability Monte Carlo conformational searches and electrostatic calculations for peptides and proteins

1 reference

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5 July 2018

Detailed analysis of the free and bound conformations of an antibody. X-ray structures of Fab 17/9 and three different Fab-peptide complexes

1 reference

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5 July 2018

Recombinant anti-sialidase single-chain variable fragment antibody. Characterization, formation of dimer and higher-molecular-mass multimers and the solution of the crystal structure of the single-chain variable fragment/sialidase complex.

1 reference

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5 July 2018

The de novo design of an antibody combining site. Crystallographic analysis of the VL domain confirms the structural model

1 reference

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5 July 2018

Sequencing and modeling of anti-DNA immunoglobulin Fv domains. Comparison with crystal structures.

1 reference

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5 July 2018

Structural analysis of antibody specificity. Detailed comparison of five Fab'-steroid complexes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Major antigen-induced domain rearrangements in an antibody

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Structure and specificity of the anti-digoxin antibody 40-50

1 reference

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5 July 2018

Crystal structure of a cross-reaction complex between Fab F9.13.7 and guinea fowl lysozyme

1 reference

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5 July 2018

High-affinity antigen binding by chelating recombinant antibodies (CRAbs).

1 reference

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5 July 2018

Cloning, characterization, and modeling of a monoclonal anti-human transferrin antibody that competes with the transferrin receptor

1 reference

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5 July 2018

Protein epitopes: functional vs. structural definitions

1 reference

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5 July 2018

Structure of an antibody-antigen complex: crystal structure of the HyHEL-10 Fab-lysozyme complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Conformations of immunoglobulin hypervariable regions

1 reference

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5 July 2018

Antibody-antigen complexes

1 reference

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5 July 2018

Strength and co-operativity of contributions of surface salt bridges to protein stability

1 reference

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5 July 2018

Analysis of the structural diversity of monoclonal antibodies to cyclosporine

1 reference

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5 July 2018

Prediction of protein side-chain conformation by packing optimization.

1 reference

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5 July 2018

Structure, function and properties of antibody binding sites

1 reference

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5 July 2018

Structural aspects of antibodies and antibody-antigen complexes

1 reference

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5 July 2018

Accurate prediction of the stability and activity effects of site-directed mutagenesis on a protein core

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5 July 2018

Common structural features among monoclonal antibodies binding the same antigenic region of cytochrome c

1 reference

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5 July 2018

Accurate modeling of protein conformation by automatic segment matching

1 reference

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5 July 2018

Common features of the conformations of antigen-binding loops in immunoglobulins and application to modeling loop conformations

1 reference

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5 July 2018

Electrostatic fields in antibodies and antibody/antigen complexes

1 reference

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5 July 2018

Modeling the anti-CEA antibody combining site by homology and conformational search

1 reference

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5 July 2018

Modeling the antigen combining site of an anti-dinitrophenyl antibody, ANO2

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

New algorithm to model protein-protein recognition based on surface complementarity. Applications to antibody-antigen docking

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

5 July 2018

Protein side-chain rearrangement in regions of point mutations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

28 October 2018

Building blocks, hinge-bending motions and protein topology

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

28 October 2018

A proposed structural model for amyloid fibril elongation: domain swapping forms an interdigitating beta-structure polymer

1 reference

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28 October 2018

Collective motions in HIV-1 reverse transcriptase: examination of flexibility and enzyme function.

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28 October 2018

Hydrogen bonds and salt bridges across protein-protein interfaces

1 reference

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28 October 2018

Association of the anti-hen egg lysozyme antibody HyHEL-5 with avian species variant and mutant lysozymes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

28 October 2018

Site-directed mutagenesis in analysis of protein-protein interactions

1 reference

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28 October 2018

Protein folding by restrained energy minimization and molecular dynamics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303598

28 October 2018

Binding of the neuroleptic drug haloperidol to a monoclonal antibody: refinement of the binding site molecular model using canonical structures

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Immunochemical and crystallographic studies of antibody D1.3 in its free, antigen-liganded, and idiotope-bound states

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

CHARMM: A program for macromolecular energy, minimization, and dynamics calculations

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Canonical structures for the hypervariable regions of immunoglobulins

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Structural differences among monoclonal antibodies with distinct fine specificities and kinetic properties

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Mutations of an epitope hot-spot residue alter rate limiting steps of antigen-antibody protein-protein associations

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Temperature differentially affects encounter and docking thermodynamics of antibody--antigen association

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Maturation of an antibody response is governed by modulations in flexibility of the antigen-combining site

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Elastic Properties of Proteins: Insight on the Folding Process and Evolutionary Selection of Native Structures

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Binding of modified fragments of the Shigella dysenteriae type 1 O-specific polysaccharide to monoclonal IgM 3707 E9 and docking of the immunodeterminant to its modeled Fv

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Is structural flexibility of antigen-binding loops involved in the affinity maturation of anti-DNA antibodies?

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Transition-state theory and secondary forces in antigen--antibody complexes

1 reference

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7 January 2021

On the nature of antibody combining sites: Unusual structural features that may confer on these sites an enhanced capacity for binding ligands

1 reference

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7 January 2021

Pilus chaperone FimC-adhesin FimH interactions mapped by TROSY-NMR

1 reference

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7 January 2021

A three-dimensional model of an anti-lysozyme antibody

1 reference

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7 January 2021

Anti-insulin antibody structure and conformation. II. Molecular dynamics with explicit solvent

1 reference

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7 January 2021

Structural modeling of the complex between an acetylcholine receptor-mimicking antibody and its snake toxin antigen

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974740-7

7 January 2021

Role of salt bridge formation in antigen-antibody interaction. Entropic contribution to the complex between hen egg white lysozyme and its monoclonal antibody HyHEL10

1 reference

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7 January 2021

Thermodynamic characterization of affinity maturation: the D1.3 antibody and a higher-affinity mutant.

1 reference

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7 January 2021

Flexibility analysis of enzyme active sites by crystallographic temperature factors

1 reference

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7 January 2021

Thermodynamic analysis of antigen-antibody binding using biosensor measurements at different temperatures

1 reference

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7 January 2021

Antigenic regions defined by monoclonal antibodies correspond to structural domains of avian lysozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/14581222

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Experimental analysis by site-directed mutagenesis of somatic mutation effects on affinity and fine specificity in antibodies specific for lysozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/14581222

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Patterns of antibody specificity during the BALB/c immune response to hen eggwhite lysozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/14581222

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Association energetics of cross-reactive and specific antibodies

51

1 reference

10.1016/S0006-3495(03)74740-7

https://api.crossref.org/works/10.1016/S0006-3495(03)74740-7

25 March 2024

Molecular recognition of lysozyme by monoclonal antibodies

77

1 reference

10.1016/S0006-3495(03)74740-7

https://api.crossref.org/works/10.1016/S0006-3495(03)74740-7

25 March 2024

Identifiers

10.1016/S0006-3495(03)74740-7

1 reference

Europe PubMed Central

PubMed publication ID

31 July 2017

PMC publication ID

1 reference

Europe PubMed Central

PubMed publication ID

31 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

31 July 2017

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