6DJO

Cryo-EM structure of ADP-actin filaments

Summary for 6DJO

• Entry DOI: 10.2210/pdb6djo/pdb
• Related: 6DJM 6DJN
• EMDB information: 7936 7937 7938
• Descriptor: Actin, alpha skeletal muscle, MAGNESIUM ION, ADENOSINE-5'-DIPHOSPHATE (3 entities in total)
• Functional Keywords: actin, adp, filament, atpase, contractile protein
• Biological source: Gallus gallus (Chicken)
• Total number of polymer chains: 4
• Total formula weight: 169308.56

Authors

Chou, S.Z.,Pollard, T.D. (deposition date: 2018-05-25, release date: 2019-02-27, Last modification date: 2024-04-10)

Primary citation

Chou, S.Z.,Pollard, T.D.
Mechanism of actin polymerization revealed by cryo-EM structures of actin filaments with three different bound nucleotides.
Proc.Natl.Acad.Sci.USA, 116:4265-4274, 2019

PubMed Abstract: We used cryo-electron microscopy (cryo-EM) to reconstruct actin filaments with bound AMPPNP (β,γ-imidoadenosine 5'-triphosphate, an ATP analog, resolution 3.1 Å), ADP-P (ADP with inorganic phosphate, resolution 3.1 Å), or ADP (resolution 3.6 Å). Subunits in the three filaments have similar backbone conformations, so assembly rather than ATP hydrolysis or phosphate dissociation is responsible for their flattened conformation in filaments. Polymerization increases the rate of ATP hydrolysis by changing the positions of the side chains of Q137 and H161 in the active site. Flattening during assembly also promotes interactions along both the long-pitch and short-pitch helices. In particular, conformational changes in subdomain 3 open up multiple favorable interactions with the DNase-I binding loop in subdomain 2 of the adjacent subunit. Subunits at the barbed end of the filament are likely to be in this favorable conformation, while monomers are not. This difference explains why filaments grow faster at the barbed end than the pointed end. When phosphate dissociates from ADP-P-actin through a backdoor channel, the conformation of the C terminus changes so it distorts the DNase binding loop, which allows cofilin binding, and a network of interactions among S14, H73, G74, N111, R177, and G158 rearranges to open the phosphate release site.

PubMed: 30760599
DOI: 10.1073/pnas.1807028115

Experimental method

ELECTRON MICROSCOPY (3.6 Å)