1VCU

Structure of the human cytosolic sialidase Neu2 in complex with the inhibitor DANA

Summary for 1VCU

• Entry DOI: 10.2210/pdb1vcu/pdb
• Related: 1SNT 1SO7
• Descriptor: Sialidase 2, 2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, ... (4 entities in total)
• Functional Keywords: sialidase, neuraminidase, ganglioside, dana, sialic acid, hydrolase
• Biological source: Homo sapiens (human)
• Total number of polymer chains: 2
• Total formula weight: 86374.93

Authors

Chavas, L.M.G.,Fusi, P.,Tringali, C.,Venerando, B.,Tettamanti, G.,Kato, R.,Monti, E.,Wakatsuki, S. (deposition date: 2004-03-12, release date: 2004-11-02, Last modification date: 2023-10-25)

Primary citation

Chavas, L.M.G.,Tringali, C.,Fusi, P.,Venerando, B.,Tettamanti, G.,Kato, R.,Monti, E.,Wakatsuki, S.
Crystal Structure of the Human Cytosolic Sialidase Neu2: EVIDENCE FOR THE DYNAMIC NATURE OF SUBSTRATE RECOGNITION
J.Biol.Chem., 280:469-475, 2005

PubMed Abstract: Gangliosides play key roles in cell differentiation, cell-cell interactions, and transmembrane signaling. Sialidases hydrolyze sialic acids to produce asialo compounds, which is the first step of degradation processes of glycoproteins and gangliosides. Sialidase involvement has been implicated in some lysosomal storage disorders such as sialidosis and galactosialidosis. Neu2 is a recently identified human cytosolic sialidase. Here we report the first high resolution x-ray structures of mammalian sialidase, human Neu2, in its apo form and in complex with an inhibitor, 2-deoxy-2,3-dehydro-N-acetylneuraminic acid (DANA). The structure shows the canonical six-blade beta-propeller observed in viral and bacterial sialidases with its active site in a shallow crevice. In the complex structure, the inhibitor lies in the catalytic crevice surrounded by ten amino acids. In particular, the arginine triad, conserved among sialidases, aids in the proper positioning of the carboxylate group of DANA within the active site region. The tyrosine residue, Tyr(334), conserved among mammalian and bacterial sialidases as well as in viral neuraminidases, facilitates the enzymatic reaction by stabilizing a putative carbonium ion in the transition state. The loops containing Glu(111) and the catalytic aspartate Asp(46) are disordered in the apo form but upon binding of DANA become ordered to adopt two short alpha-helices to cover the inhibitor, illustrating the dynamic nature of substrate recognition. The N-acetyl and glycerol moieties of DANA are recognized by Neu2 residues not shared by bacterial sialidases and viral neuraminidases, which can be regarded as a key structural difference for potential drug design against bacteria, influenza, and other viruses.

PubMed: 15501818
DOI: 10.1074/jbc.M411506200

Experimental method

X-RAY DIFFRACTION (2.85 Å)