Deity atrophied, in a bad way (9)
I believe the answer is:
aphrodite
'deity' is the definition.
(Aphrodite is an example)
'atrophied in a bad way' is the wordplay.
'in a bad way' is an anagram indicator.
'atrophied' anagrammed gives 'APHRODITE'.
(Other definitions for aphrodite that I've seen before include "Greek version of Roman Venus" , "Greek goddess of beauty and love" , "Greek goddess of love, like Rome's Venus" , "Greek goddess equivalent to Roman Venus" , "Sex goddess" .)