5LJV

MamK double helical filament

Summary for 5LJV

• Entry DOI: 10.2210/pdb5ljv/pdb
• EMDB information: 4062
• Descriptor: Actin-like ATPase, MAGNESIUM ION, ADENOSINE-5'-DIPHOSPHATE (3 entities in total)
• Functional Keywords: bacterial cytoskeleton, filamentous protein, actin-like, magnetosomes, structural protein
• Biological source: Magnetospirillum magneticum AMB-1
• Total number of polymer chains: 6
• Total formula weight: 228561.95

Authors

Lowe, J. (deposition date: 2016-07-21, release date: 2016-11-16, Last modification date: 2024-05-15)

Primary citation

Lowe, J.,He, S.,Scheres, S.H.,Savva, C.G.
X-ray and cryo-EM structures of monomeric and filamentous actin-like protein MamK reveal changes associated with polymerization.
Proc. Natl. Acad. Sci. U.S.A., 113:13396-13401, 2016

PubMed Abstract: Magnetotactic bacteria produce iron-rich magnetic nanoparticles that are enclosed by membrane invaginations to form magnetosomes so they are able to sense and act upon Earth's magnetic field. In Magnetospirillum and other magnetotactic bacteria, to combine their magnetic moments, magnetosomes align along filaments formed by a bacterial actin homolog, MamK. Here, we present the crystal structure of a nonpolymerizing mutant of MamK from Magnetospirillum magneticum AMB-1 at 1.8-Å resolution, revealing its close similarity to actin and MreB. The crystals contain AMPPNP-bound monomeric MamK in two different conformations. To investigate conformational changes associated with polymerization, we used unmodified MamK protein and cryo-EM with helical 3D reconstruction in RELION to obtain a density map and a fully refined atomic model of MamK in filamentous form at 3.6-Å resolution. The filament is parallel (polar) double-helical, with a rise of 52.2 Å and a twist of 23.8°. As shown previously and unusually for actin-like filaments, the MamK subunits from each of the two strands are juxtaposed, creating an additional twofold axis along the filament. Compared with monomeric MamK, ADP-bound MamK in the filament undergoes a conformational change, rotating domains I and II against each other to further close the interdomain cleft between subdomains IB and IIB. The domain movement causes several loops to close around the nucleotide-binding pocket. Glu-143, a key residue for catalysis coordinating the magnesium ion, moves closer, presumably switching nucleotide hydrolysis upon polymerization-one of the hallmarks of cytomotive filaments of the actin type.

PubMed: 27821762
DOI: 10.1073/pnas.1612034113

Experimental method

ELECTRON MICROSCOPY (3.64 Å)