Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

2D04

Crystal structure of neoculin, a sweet protein with taste-modifying activity.

Summary for 2D04
Entry DOI10.2210/pdb2d04/pdb
Descriptorneoculin acidic subunit, Curculin, beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... (5 entities in total)
Functional Keywordsall beta, plant protein
Biological sourceCurculigo latifolia (lumbah)
More
Total number of polymer chains8
Total formula weight100961.24
Authors
Shimizu-Ibuka, A.,Morita, Y.,Terada, T.,Asakura, T.,Nakajima, K.,Iwata, S.,Misaka, T.,Sorimachi, H.,Arai, S.,Abe, K. (deposition date: 2005-07-25, release date: 2006-06-20, Last modification date: 2024-10-30)
Primary citationShimizu-Ibuka, A.,Morita, Y.,Terada, T.,Asakura, T.,Nakajima, K.,Iwata, S.,Misaka, T.,Sorimachi, H.,Arai, S.,Abe, K.
Crystal structure of neoculin: insights into its sweetness and taste-modifying activity
J.Mol.Biol., 359:148-158, 2006
Cited by
PubMed Abstract: Although the majority of sweet compounds are of low molecular mass, several proteins are known to elicit sweet taste responses in humans. The fruit of Curculigo latifolia contains a heterodimeric protein, neoculin, which has both sweetness and a taste-modifying activity that converts sourness to sweetness. Here, we report the crystal structure of neoculin at 2.76A resolution. This is the first well-defined tertiary structure of a taste-modifying protein of this kind. The overall structure is quite similar to those of monocot mannose-binding lectins. However, crucial topological differences are observed in the C-terminal regions of both subunits. In both subunits of neoculin, the C-terminal tails turn up to form loops fixed by inter-subunit disulfide bonds that are not observed in the lectins. Indeed, the corresponding regions of the lectins stretch straight over the surface of another subunit. Such a C-terminal structural feature as is observed in neoculin results in a decrease in subunit-subunit interactions. Moreover, distribution of electrostatic potential on the surface of neoculin is unique and significantly different from those of the lectins, particularly in the basic subunit (NBS). We have found that there is a large cluster composed of six basic residues on the surface of NBS, and speculate that it might be involved in the elicitation of sweetness and/or taste-modifying activity of neoculin. Molecular dynamics simulation based on the crystallography results suggests that neoculin may adopt a widely "open" conformation at acidic pH, while unprotonated neoculin at neutral pH is in a "closed" conformation. Based on these simulations and the generation of a docking model between neoculin and the sweet-taste receptor, T1R2-T1R3, we propose the hypothesis that neoculin is in dynamic equilibrium between open and closed states, and that the addition of an acid shifts the equilibrium to the open state, allowing ligand-receptor interaction.
PubMed: 16616933
DOI: 10.1016/j.jmb.2006.03.030
PDB entries with the same primary citation
Experimental method
X-RAY DIFFRACTION (2.76 Å)
Structure validation

235666

PDB entries from 2025-05-07

PDB statisticsPDBj update infoContact PDBjnumon