The actress petitioned for spousal support, child support and sole physical and joint legal custody for their daughter Stella, who turns 18 in September.
She is willing to pay her own legal fees and the couple is expected to divide up their property, which includes real estate in the U.S. and Spain, TMZ said.
The "Hawaii 5-0" guest star signed the petition on May 30 but did not list a date of separation.
Griffith, 56, and Banderas, 53, sparked their romance on the set of their 1995 film "Two Much." In 1999, Banderas helmed the film "Crazy in Alabama," which starred his wife.
Griffith also has a tattoo of "The Mask of Zorro" star's name in a heart on her right shoulder, AP said. However, they've dealt with a spate of breakup rumors much of this year, the Daily Mail reported.
It's the second divorce for Banderas, who was previously married to Spanish actress Ana Leza for nine years, but they split in 1996.
The Golden Globe-winning actress, who is the daughter of former model and actress
The "Lolita" star was previously married to Steve Bauer and twice to actor Don