Network Analysis Reveals the Recognition Mechanism for Dimer Formation of Bulb-type Lectins

Sci Rep. 2017 Jun 6;7(1):2876. doi: 10.1038/s41598-017-03003-5.

Abstract

The bulb-type lectins are proteins consist of three sequential beta-sheet subdomains that bind to specific carbohydrates to perform certain biological functions. The active states of most bulb-type lectins are dimeric and it is thus important to elucidate the short- and long-range recognition mechanism for this dimer formation. To do so, we perform comparative sequence analysis for the single- and double-domain bulb-type lectins abundant in plant genomes. In contrast to the dimer complex of two single-domain lectins formed via protein-protein interactions, the double-domain lectin fuses two single-domain proteins into one protein with a short linker and requires only short-range interactions because its two single domains are always in close proximity. Sequence analysis demonstrates that the highly variable but coevolving polar residues at the interface of dimeric bulb-type lectins are largely absent in the double-domain bulb-type lectins. Moreover, network analysis on bulb-type lectin proteins show that these same polar residues have high closeness scores and thus serve as hubs with strong connections to all other residues. Taken together, we propose a potential mechanism for this lectin complex formation where coevolving polar residues of high closeness are responsible for long-range recognition.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Algorithms
  • Binding Sites
  • Mannose / chemistry
  • Mannose / metabolism
  • Models, Molecular*
  • Plant Lectins / chemistry*
  • Plant Lectins / metabolism*
  • Protein Binding
  • Protein Conformation*
  • Protein Multimerization*
  • Structure-Activity Relationship

Substances

  • Plant Lectins
  • Mannose