Well, the similarities of course are that both states were created as a result of British intervention in former British colonies right after WWII (1947 and 1948), were formed on the basis of a shared religious identity, and had to fight wars with neighbors immediately after their formation.

The one major difference is that Israel is a classic settler-colonial state, while Pakistan isn't. The people that are referred to as Pakistanis today are indigenous to the region. They didn't migrate to the area. There are other differences too. Because of the settlements, Israel is an expansionist state with no clearly defined borders, while Pakistan is not. Also, Israel was supposed to be a sort of refuge for all the Jews of the world. A Jewish person anywhere can easily get Israeli citizenship. Pakistan, OTOH, was formed only for the Muslims of India (many of whom it should be noted decided to stay in India instead of migrating). Another difference is the fact that while Israel has become a developed state with a powerful economy that has a respected research and development sector, Pakistan remains a third world country and suffers from widespread poverty and political instability.

I can't answer your question as to why people don't protest Pakistan, because I don't really understand what you're asking. Are you talking about the existence of Pakistan itself or the policies of the Pakistani government? It's important to understand that the reason activists protest against Israel is because Israel is a settler-colonial state. So there's a history of dispossession there, which is serious. Also, Israel has been occupying what's left of Palestinian land for almost fifty years, which is a concern for those in the peace and justice movements. Israel's brutal methods of dealing with Palestinian resistance has also elicited a response from people around the world, and this goes all the way back to the first intifada.

I think creating states on the basis of a supposed religious identity is almost never a good idea. Societies in such countries are paranoid and insecure, and often feel as if everyone is out to get them. There's a narrative of victimhood and a tradition of blaming the "Other" for everything, which just creates generations of brainwashed people who can't think for themselves.

There's a really good book by historian Faisal Devji called Muslim Zion on exactly this subject, which I highly recommend.