I have LLC and spouse is w2; w2 does extra withholdings to cover my LLC taxes

I have an LLC and do not pay quarterly taxes. My spouse works a w2 and does extra withholdings each pay period to cover my taxes. Is this okay? I am not a S or C corp. I noticed that since doing this my taxed income on my social security account seems VERY low. I am not sure why.. is it because I am not paying taxes directly? Hope this makes sense.