Sucrose concentrations of 8%, 25%, 45%, 50%, 60%, 70%, and 80% were prepared in 10 mM Tris buffer containing 2 mM EDTA and 2 mM β-mercaptoethanol at pH 8.0. The sucrose density gradient was layered as follows: 1 mL, 80%; 2 mL, 70%; 1.5 mL, 60%; 1.5 mL, 50%; 1.5 mL, 45%; 1.5 mL, 25%. The sample (core or inner region) was aspirated 30 times through a 21-gauge syringe needle in 8% sucrose (100 μL). Coomassie stain (800 μL 8% sucrose buffer plus 100 μL Coomassie stain; #23236; Pierce, Rockford, IL) was added to the sample and gently vortexed just before loading onto the sucrose gradient. An additional 1 mL of 8% sucrose solution was layered on top of the sample. All sucrose gradients were kept chilled on ice before centrifugation.
Gradients were centrifuged at 100,000g for 2 hours at 4°C using a rotor (Ti41; Beckman Coulter, Fullerton, CA) in a centrifuge (L-80; Beckman). The resultant interfaces were labeled consecutively from most to least dense: SG1 (70/80% interface), SG2 (60%/70% interface), SG3 (50%/60% interface), SG4 (45%/50% interface), SG5 (25%/45% interface), and SG6 (8%/25% interface).