Computational-guided determination of the functional role of 447-52D long CDRH3

Edwin Kamau, Richard Bonneau, Xiang Peng Kong

Research output: Contribution to journalArticle

Abstract

447-52D (447) is a human monoclonal antibody that recognizes a conserved epitope in the crown region of the third variable loop (V3) of HIV-1 gp120, and like many anti-HIV-1 antibodies with broad neutralization capabilities, it has a long heavy-chain complementarity determining region (CDRH3). Here, we use a combination of computational mutagenesis and modeling in tandem with fluorescence polarization assays to interrogate the molecular basis of 447 CDRH3 length and the individual contribution of selected CDRH3 residues to affinity. We observe that 447 CDRH3 length provides a large binding surface area and the best enthalpic contributions derived from hydrophobic packing, main-chain hydrogen bonds, electrostatic and van der Waals interactions. We also found out that CDRH3 residue Try100I is critical to 447 binding affinity.

Original languageEnglish (US)
Pages (from-to)479-487
Number of pages9
JournalProtein engineering, design & selection : PEDS
Volume31
Issue number12
DOIs
StatePublished - Dec 1 2018

Fingerprint

Complementarity Determining Regions
Epitopes
Mutagenesis
Monoclonal antibodies
Antibodies
HIV-1
Electrostatics
Assays
Hydrogen bonds
Fluorescence
Monoclonal Antibodies
Polarization
HIV Antibodies
Fluorescence Polarization
Crowns
Static Electricity
Hydrogen

Keywords

  • antibody
  • antigen-binding site
  • complementarity determining region

ASJC Scopus subject areas

  • Biotechnology
  • Bioengineering
  • Biochemistry
  • Molecular Biology

Cite this

Computational-guided determination of the functional role of 447-52D long CDRH3. / Kamau, Edwin; Bonneau, Richard; Kong, Xiang Peng.

In: Protein engineering, design & selection : PEDS, Vol. 31, No. 12, 01.12.2018, p. 479-487.

Research output: Contribution to journalArticle

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