A DNA molecule isn't just a long, boring string of nucleotides. Instead, it's divided up into functional units called genes. Each gene provides instructions for a functional product, that is, a molecule needed to perform a job in the cell. In many cases, the functional product of a gene is a protein. For example, Mendel's flower color gene provides instructions for a protein that helps make colored molecules (pigments) in flower petals.
The functional products of most known genes are proteins, or, more accurately, polypeptides. Polypeptide is just another word for a chain of amino acids. Although many proteins consist of a single polypeptide, some are made up of multiple polypeptides. Genes that specify polypeptides are called protein-coding genes.