A house with only 2 bedrooms (regardless of square footage) can be a problem. A lot of people now want a home office. Or they tele-commute. (Or a lot want an exercise room.) So, a large chunk of buyers in many areas need one bedroom just for their office or exercise room. So, that leaves only one bedroom as a bedroom. That may be OK if it's a single person, or a couple with no kids. But if there's a couple with a child, and they want a home office or exercise room, they're going to want at least 3 bedrooms. And even if it's just a couple, many look ahead to the time when they may have children. So, as nice as your home may be, yes, 2 bedrooms is a drawback.
Is there any other room in your house that could function as a bedroom? Or...function as a home office/exercise room? Now, if it's legally only a 2 bedroom, that's the way it'd have to be listed on the MLS, which would still be a drawback. But the agent's comments could note that there are also rooms for a home office and exercise room. And if you put your property on the market, it definitely should be staged to demonstrate that there's space for a home office, perhaps an exercise room, plus two bedrooms, both of which could be used as bedrooms.
Be careful of Zillow--or any of the other similar sites. (I personally like RealEstateABC.) I've posted a couple of responses, taking a typical house in a neighborhood, then looking at the Zestimate and the "comps" as defined by Zillow. Frankly, Zillow used to be better. Now, what's coming up isn't comparable at all. Based on what I've seen lately, you really have to have a CMA.
Hope that helps.