well I don't know if it's distorted or not, but assuming it's not. I'd say just turn the lows on your amp practically all the way down. and turn the mids practically all the way up. it depends on your amp and set up, but I like to keep the lows mostly down so there is room for a bass in my recordings. highs I tend to alter the most depending on how harsh I want it to sound. I also recommend using a light pick if you're trying to get rid of boominess - the light pick on the guitar will make your sound level more consistent than your fingers or a harder pick (unless you're a master at the guitar). I also recommend making sure your guitar is set on treble and that the tone knob on the guitar is set to treble (for your specific problem experiment with that, I don't suggest ALWAYS doing this). these are just some basic ideas.
oh and make sure your amp is off the ground, preferably in a wooden chair/stool. people always mess this up. if you are recording distortion - turn the gain way down, way way down, trust me, and then double track/pan if need be. you might also try lighter strings, I know I use the heaviest guage strings I can find - that's just me. just some ideas to making your sound source sound better.