At the best of my knowledge, it is applicable (in a first approximation) for rarefied flows such as for re-enter vehicles. Have a look here https://books.google.it/books?id=GzVIBAAAQBAJ&pg=PA40&lpg=PA40&dq=Newton+Sine-Squared+Law&source=bl&ots=OS4I2l9HHp&sig=tB1HeZSZo1eZ3Gc1mUigCT89Ygc&hl=it&sa=X&ved=0ahUKEwixkNTdnLLWAhUrK8AKHdJeDpYQ6AEILzAB#v=onepage&q=Newton%20Sine-Squared%20Law&f=false
Although originally developed for low Reynolds flow, Newton's sine squared law is applied for hypersonic flow. At low Reynolds numbers, aerodynamic resistance is driven by viscous friction, at high Reynolds numbers is is determined by pressure drag. Newton's law is based on pressure drag. So I'd say... no, it is not applicable to your Re=1000 case.
For initial approximation to calculate the coefficient of pressure we can use Newton's sine squared law, however, it is limited to the case where the flow is over a flat inclined plate.