A strong propensity toward loop formation characterizes the expressed reading frames of the D segments at the Ig H and T cell receptor loci

Eur J Immunol. 1991 Dec;21(12):3021-5. doi: 10.1002/eji.1830211218.

Abstract

A compilation of murine and human Ig H and TcR beta D segment sequences was used to estimate the relative usage of the various reading frames and to look for associated sequence patterns. We confirm a strong bias in the expression of the Ig H D segments, with more than 90% (murine) and 85% (human) expressed peptides resulting from a preferred reading frame. Remarkably, 86% (mouse) and 90% (human) of those peptides contain at least one glycine residue. All but one of the atypical preferred D peptides contain serine or proline residues and are found in the immediate vicinity of glycine residues provided by specific JH segments. The presence of tyrosine residues is also a characteristic feature of expressed reading frames in both mouse (75%) and human (90%). These results suggest that the constraints of forming a flexible loop within the third complementarity-determining region, is a factor in the preference for a particular reading frame in Ig H D. For the TcR beta D segments, glycine is specified in most reading frames, and no significant preference is observed.

MeSH terms

  • Amino Acid Sequence
  • Animals
  • Antibody Diversity*
  • Base Sequence
  • Codon
  • DNA / genetics
  • Gene Rearrangement, B-Lymphocyte, Heavy Chain*
  • Gene Rearrangement, beta-Chain T-Cell Antigen Receptor*
  • Genes, Immunoglobulin*
  • Glycine / chemistry
  • Humans
  • Immunoglobulin Heavy Chains / chemistry
  • Immunoglobulin Heavy Chains / genetics*
  • Immunoglobulin Heavy Chains / ultrastructure
  • Mice
  • Molecular Sequence Data
  • Protein Biosynthesis
  • Protein Conformation
  • Receptors, Antigen, T-Cell, alpha-beta / chemistry
  • Receptors, Antigen, T-Cell, alpha-beta / genetics*
  • Receptors, Antigen, T-Cell, alpha-beta / ultrastructure
  • Solubility
  • Tyrosine / chemistry

Substances

  • Codon
  • Immunoglobulin Heavy Chains
  • Receptors, Antigen, T-Cell, alpha-beta
  • Tyrosine
  • DNA
  • Glycine