New Domain.... Issues With SmartFTP

I re-downloaded Smart FTP because it was such a good FTP client while I was under subdomain hosting to another site. I have since bought my new domain and can't figure out exactly how everything is supposed to work. I have a multitude of folders, and I am not sure where to start putting my things...

I am hosted under SurpassHosting, if that makes any difference.. And I would really appreciate it if someone could possibly point me in the right direction on how to start uploading onto my new server...

Thank you,
Rini