In my opinion the pill scene [1] has everything that made The Matrix unique. The color, lightning, costumes, ambience (rain and thunder outside), surgical use of soundtrack and the dialogue itself. All the elements successfully contribute to give it that comicbook/cyberpunk feel.

In contrast, the sequels don't have such simple but striking scenes like that.

[1] https://www.youtube.com/watch?v=te6qG4yn-Ps