5YQW

Structure and function of a novel periplasmic chitooligosaccharide-binding protein from marine Vibrio bacteria

Summary for 5YQW

• Entry DOI: 10.2210/pdb5yqw/pdb
• Descriptor: Peptide ABC transporter, periplasmic peptide-binding protein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE, ... (5 entities in total)
• Functional Keywords: chitooligosaccharide-binding protein, vibrio harveyi, protein binding
• Biological source: Vibrio harveyi (strain 1DA3)
• Total number of polymer chains: 1
• Total formula weight: 61024.44

Authors

Suginta, W.,Sritho, N.,Ranok, A.,Kitaoku, Y.,Bulmer, D.M.,van den Berg, B.,Fukamizo, T. (deposition date: 2017-11-08, release date: 2018-02-21, Last modification date: 2023-11-22)

Primary citation

Suginta, W.,Sritho, N.,Ranok, A.,Bulmer, D.M.,Kitaoku, Y.,van den Berg, B.,Fukamizo, T.
Structure and function of a novel periplasmic chitooligosaccharide-binding protein from marineVibriobacteria.
J. Biol. Chem., 293:5150-5159, 2018

PubMed Abstract: Periplasmic solute-binding proteins in bacteria are involved in the active transport of nutrients into the cytoplasm. In marine bacteria of the genus , a chitooligosaccharide-binding protein (CBP) is thought to be the major solute-binding protein controlling the rate of chitin uptake in these bacteria. However, the molecular mechanism of the CBP involvement in chitin metabolism has not been elucidated. Here, we report the structure and function of a recombinant chitooligosaccharide-binding protein from , namely CBP, expressed in Isothermal titration calorimetry revealed that CBP strongly binds shorter chitooligosaccharides ((GlcNAc) , where = 2, 3, and 4) with affinities that are considerably greater than those for glycoside hydrolase family 18 and 19 chitinases but does not bind longer ones, including insoluble chitin polysaccharides. We also found that VhCBP comprises two domains with flexible linkers and that the domain-domain interface forms the sugar-binding cleft, which is not long extended but forms a small cavity. (GlcNAc) bound to this cavity, apparently triggering a closed conformation of CBP. Trp-363 and Trp-513, which stack against the two individual GlcNAc rings, likely make a major contribution to the high affinity of CBP for (GlcNAc) The strong chitobiose binding, followed by the conformational change of CBP, may facilitate its interaction with an active-transport system in the inner membrane of species.

PubMed: 29444825
DOI: 10.1074/jbc.RA117.001012

Experimental method

X-RAY DIFFRACTION (1.36 Å)