The Panthers (3-2) led 74-67 with 1:30 remaining after a 3-pointer and a jumper by Atkins, but two 3-pointers by Xavier Roberson brought the Jaguars (2-3) within a point, 74-73, with 35 seconds left.
After Hunter made 1 of 2 free throws, Mychal Ammons missed a jumper for South Alabama with 2 seconds left.
Atkins scored 19 points in the first half, when Georgia State took a 43-35 lead. Hunter, a freshman, scored 14 in the final 13 minutes.
The Panthers made 11 of 18 3-pointers, including 5 of 6 by Atkins.
Augustine Rubit led South Alabama with 31 points, tying a career high, and 11 rebounds.
The Jaguars went 0-3 at the Coaches vs. Cancer subregional hosted by the Panthers.