Typically ER closer to the nucleus is rough and that farther away is smooth. Smooth ER is a transition area where chemicals like proteins the cell has manufactured are stored in the lumen for transportation elsewhere in the cell. Pieces of the smooth ER called vesicles pinch off from the smooth ER and travel other places in the cell to transfer their contents. Rough ER gets its name because it has other organelles called ribosomes attached, which give it a rough appearance when viewed by an electron microscope. Rough ER and its associated ribosomes are involved in protein synthesis, with the new polypeptide being threaded into the lumen of the ER as it is formed.
Ribosomes are special organelles that are directly involved in protein synthesis.
Generally, vacuoles are larger than vesicles. Plant cells generally have one large central vacuole that takes up most of the space within the cell and is used for storage of all sorts of molecules. Paramecium have a special type called a contractile vacuole that serves to excrete water from the cell, sort of like our kidneys excrete water from our bodies. Vesicles are small enough and mobile enough that they are often used to move chemicals to other locations in the cell where they might be needed. One of the places to which vesicles travel is the Golgi apparatus or Golgi bodies .