Actually is yes its -2 nexus health until nexus HP below some point, (100 health maybe) (there wont be -2 health). To proof this, you can see at beginning of your game, where 2 point capture it at the same time, both nexus health is 496 vs 496. There is another -2 health: your champs killed.
If your nexus is below some point, your revive time become shorter and shorter (depending with captured point too, if your numbers captured point is lower than enemy numbers in this condition, your revive time will be shorter)