Hi and welcome to Arturia forums.
If i understand you correct, then you can do this:
1. In Spark PREFS tab check "Send Midi from Sequencer", so it show "Yes".
2. Activate SONG (mode) in Spark SONG tab. I understand you have made a Song there.
3. Set your track in your DAW to recieve Midi input from Spark and arm the track. I can't tell you more about this, as i don't use Pro Tools.
Now when you hit record the Song will play, and the Midi notes should be recorded in your DAW. Then just remember, that you shall use an empty pattern in Spark from there, if you still use Spark as a sound module for the recorded midi notes.
I can suggest, that you look at the possiblities you have in Spark Prefs tab, for doing different things.
And i can suggest you look in the Spark manual. It's not the best, but can be helpful for some things.
Hope this helps.