Structural analysis of semi-specific oligosaccharide recognition by a cellulose-binding protein of thermotoga maritima reveals adaptations for functional diversification of the oligopeptide periplasmic binding protein fold

J Biol Chem. 2009 Nov 27;284(48):33217-23. doi: 10.1074/jbc.M109.041624. Epub 2009 Oct 2.

Abstract

Periplasmic binding proteins (PBPs) constitute a protein superfamily that binds a wide variety of ligands. In prokaryotes, PBPs function as receptors for ATP-binding cassette or tripartite ATP-independent transporters and chemotaxis systems. In many instances, PBPs bind their cognate ligands with exquisite specificity, distinguishing, for example, between sugar epimers or structurally similar anions. By contrast, oligopeptide-binding proteins bind their ligands through interactions with the peptide backbone but do not distinguish between different side chains. The extremophile Thermotoga maritima possesses a remarkable array of carbohydrate-processing metabolic systems, including the hydrolysis of cellulosic polymers. Here, we present the crystal structure of a T. maritima cellobiose-binding protein (tm0031) that is homologous to oligopeptide-binding proteins. T. maritima cellobiose-binding protein binds a variety of lengths of beta(1-->4)-linked glucose oligomers, ranging from two rings (cellobiose) to five (cellopentaose). The structure reveals that binding is semi-specific. The disaccharide at the nonreducing end binds specifically; the other rings are located in a large solvent-filled groove, where the reducing end makes several contacts with the protein, thereby imposing an upper limit of the oligosaccharides that are recognized. Semi-specific recognition, in which a molecular class rather than individual species is selected, provides an efficient solution for the uptake of complex mixtures.

Publication types

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

MeSH terms

  • Bacterial Proteins / chemistry*
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism
  • Carrier Proteins / chemistry*
  • Carrier Proteins / genetics
  • Carrier Proteins / metabolism
  • Cellobiose / chemistry
  • Cellobiose / metabolism
  • Cellulose / chemistry
  • Cellulose / metabolism
  • Crystallography, X-Ray
  • Hydrogen Bonding
  • Models, Molecular
  • Oligopeptides / chemistry
  • Oligopeptides / metabolism
  • Oligosaccharides / chemistry*
  • Oligosaccharides / metabolism
  • Periplasmic Binding Proteins / chemistry*
  • Periplasmic Binding Proteins / genetics
  • Periplasmic Binding Proteins / metabolism
  • Protein Conformation
  • Protein Denaturation
  • Protein Folding
  • Protein Structure, Tertiary
  • Temperature
  • Thermotoga maritima / genetics
  • Thermotoga maritima / metabolism*

Substances

  • Bacterial Proteins
  • Carrier Proteins
  • Oligopeptides
  • Oligosaccharides
  • Periplasmic Binding Proteins
  • Cellobiose
  • maltopentaose
  • Cellulose

Associated data

  • PDB/2O7I
  • PDB/3I5O