Taking amoxicillin while I’m on the pill?

I have to take amoxicillin due to fever and step throat. I take my pills right every time and had sex 2-3 days ago, recently where he finished in me a few times. If I take my amoxicillin today, will it affect my pill based on when he finished in me? Or will it affect the future use? I’ll be wearing a back up protection as well for a week or 2, but I just wanna know if I’ll be protected from the times he came in me, considering I’m about to start taking amoxicillin today.