4YGO

Dodecameric structure of spermidine N-acetyltransferase from Vibrio cholerae in intermediate state

Summary for 4YGO

• Entry DOI: 10.2210/pdb4ygo/pdb
• Related: 3EG7 4JJX 4JLY 4K4L 4MHD 4MI4 4MJ8 4NCZ 4R57 4R87
• Descriptor: Spermidine n1-acetyltransferase, CALCIUM ION, METHANOL, ... (4 entities in total)
• Functional Keywords: speg, structural genomics, csgid, center for structural genomics of infectious diseases, transferase
• Biological source: Vibrio cholerae serotype O1 (ATCC 39315 / El Tor Inaba N16961)
• Total number of polymer chains: 6
• Total formula weight: 124492.82

Authors

Filippova, E.V.,Minasov, G.,Kiryukhina, O.,Anderson, W.F.,Center for Structural Genomics of Infectious Diseases (CSGID) (deposition date: 2015-02-26, release date: 2015-10-07, Last modification date: 2023-11-29)

Primary citation

Filippova, E.V.,Weigand, S.,Osipiuk, J.,Kiryukhina, O.,Joachimiak, A.,Anderson, W.F.
Substrate-Induced Allosteric Change in the Quaternary Structure of the Spermidine N-Acetyltransferase SpeG.
J.Mol.Biol., 427:3538-3553, 2015

PubMed Abstract: The spermidine N-acetyltransferase SpeG is a dodecameric enzyme that catalyzes the transfer of an acetyl group from acetyl coenzyme A to polyamines such as spermidine and spermine. SpeG has an allosteric polyamine-binding site and acetylating polyamines regulate their intracellular concentrations. The structures of SpeG from Vibrio cholerae in complexes with polyamines and cofactor have been characterized earlier. Here, we present the dodecameric structure of SpeG from V. cholerae in a ligand-free form in three different conformational states: open, intermediate and closed. All structures were crystallized in C2 space group symmetry and contain six monomers in the asymmetric unit cell. Two hexamers related by crystallographic 2-fold symmetry form the SpeG dodecamer. The open and intermediate states have a unique open dodecameric ring. This SpeG dodecamer is asymmetric except for the one 2-fold axis and is unlike any known dodecameric structure. Using a fluorescence thermal shift assay, size-exclusion chromatography with multi-angle light scattering, small-angle X-ray scattering analysis, negative-stain electron microscopy and structural analysis, we demonstrate that this unique open dodecameric state exists in solution. Our combined results indicate that polyamines trigger conformational changes and induce the symmetric closed dodecameric state of the protein when they bind to their allosteric sites.

PubMed: 26410587
DOI: 10.1016/j.jmb.2015.09.013

Experimental method

X-RAY DIFFRACTION (2.5 Å)