" Companies incorporated in Israel can’t use Stripe for payment processing. They currently work with 25 countries around the world. BlueSnap can provide payments for businesses incorporated in Israel . BlueSnap has a local office in Israel along with offices in the US and EU."
We use fastspring.com. I’m not sure if they work with Israeli-based companies (we’re US based), but they cover a lot of countries so they’re worth a look. Easy to integrate. And among several helpful features, they provide a customizable checkout popup, which takes a big chunk of dev off your plate.