2JDA

Structure of a pectin binding carbohydrate binding module determined in an monoclinic crystal form.

Summary for 2JDA

• Entry DOI: 10.2210/pdb2jda/pdb
• Related: 2JD9
• Descriptor: YECBM32, CALCIUM ION, GLYCEROL, ... (5 entities in total)
• Functional Keywords: hypothetical protein, yersinia enterocolitica, carbohydrate- binding module, sugar-binding protein, pectin, plant cell wall, galacturonic acid, sugar binding protein
• Biological source: YERSINIA ENTEROCOLITICA
• Total number of polymer chains: 2
• Total formula weight: 32990.62

Authors

Abbott, D.W.,Boraston, A.B. (deposition date: 2007-01-05, release date: 2007-01-16, Last modification date: 2024-05-08)

Primary citation

Abbott, D.W.,Hrynuik, S.,Boraston, A.B.
Identification and Characterization of a Novel Periplasmic Polygalacturonic Acid Binding Protein from Yersinia Enterolitica
J.Mol.Biol., 367:1023-, 2007

PubMed Abstract: A number of bacteria in the family Enterobacteriaceae harbor the genes comprising well-developed pectinolytic pathways (e.g. Erwinia sp.) or abridged versions of this pathway (e.g. Yersinia sp.). One of the most enigmatic components present in some of these pathways is a small gene that encodes a predicted secreted protein of approximately 160 amino acid residues with unknown function. This protein shows distant amino acid sequence similarity over its entire length to galactose-specific family 32 carbohydrate-binding modules (CBMs). Here we demonstrate the ability of the Yersinia enterocolitica example, here called YeCBM32, to bind polygalacturonic acid containing components of pectin. This binding is selective for highly polymerized galacturonic acid and shows a complex mode of polysaccharide recognition. The high resolution X-ray crystal structure (1.35 A) shows YeCBM32s overall structural similarity to galactose specific CBMs and conserved binding site location but reveals a substantially different binding site topology, which likely reflects its unique polymeric and acidic ligand. The results suggest the possibility of a unique role for YeCBM32 in polygalacturonic acid transport.

PubMed: 17292916
DOI: 10.1016/J.JMB.2007.01.030

Experimental method

X-RAY DIFFRACTION (1.35 Å)