As much as Jung is proto-Asuka, Electra is proto-Ritsuko, with the Nadia & Nemo relationship also sharing much in common with Shinji & Gendo. Hell, the situation with the Blue Water & Nadia's mother also heavily mirrors that of Eva-01 & Shinji's mother. Fuyutski is like a negative (or positive if you will) version of Gargoyle, with Neo Atlantis & their goals being not to different from Seele. Nerv, including its fate, mirrors much of what happened to the Nautilus, and I suppose Misato would most closely resemble Grandis.
Much of what made Eva great was built up from Nadia, perhaps it was Anno trying to save what would have been his masterwork in the only way he could, by taking the base framework & re-using it in something that was more under his control. Looking at Anno's other works (including the live action ones), we know he's perfectly capable of telling other stories, I think it was just that he wanted to take another stab at telling that one, and did so in the guise of making an entirely different show.
Which reminds me, I really do need to get around to watching Shikjitsu.