Yes. "Rape culture" is a term for a set of cultural values that normalize the idea that women's consent does not matter and that men have a right to impose their sexual desires upon women to some degree or other. If a movie spreads the idea that it's okay to sexually harass a woman because doing so is actually charming, then the idea that movie is spreading is an example of rape culture. It is called "rape culture" because the logical conclusion of the idea that women's consent does not matter is that sexual assault is okay.
The only reason to make that claim is if you don't understand the term and/or if you think that women aren't equal to men.
He was sexually harassing Uhura. In the real world, sexual harassment leads to rape when the culture indoctrinates people into thinking that sexual harassment is okay and women's consent does not matter. By depicting Kirk's acts of sexual harassment as somehow "charming," ST09 was spreading the idea that women's consent does not matter and that sexual harassment is okay. Thus, ST09 was acting as an agent of American rape culture (which manifests itself in many different aspects of American culture).