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Yes it certainly can, and it's outlined on page 20 of the user manual:

Hi,
I am trying to find the answer to this question, but I cannot find the answer anywhere (including the manual, this forum, YouTube videos, general world wide web, etc.), but can somebody tell me that the CDJ-2000 nexus (I have 3 of them) can sync over Pro DJ Link to a DJS-1000? The reason I want to know is that it will make the difference between me buying this over the Toraiz SP-16.
Best regards,
DJ-Mavericks
Yes it certainly can, and it's outlined on page 20 of the user manual:

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Thanks very much for this Pulse!!!! I had found this in the manual, but I had also seen comments like it was compatible with the CDJ-2000 NXS2 and XDJ-1000 mk2. What confused me was a YouTube video from a guy who said it did not work with the original CDJ-2000 over Pro DJ Link. So, naturally I just wanted to make sure it was compatible with the previous generation CDJ-2000 Nexus as well as the NXS2. Thanks again.
Best regards,
DJ-Mavericks.