I would think by now the Ark would be dust itself because it was supposedly just wood with gold leaf. Unless something supernatural kept it intact.
In a desert climate that's protected from direct rain in particular, I don't think wood would turn to dust in 2000 years. It might be starting to turn into a petrified version under some circumstances. I'm not sure it was gold leaf used either (hard to say what "overlaid" in gold means and even that word is a translation. Today it would likely be gold plated, which would seal the wood and make it even less likely to fall apart if care was given.
Certainly, the church in Ethiopia claims to have the original to this very day (they also claimed to have made many copies so to discourage thieves). One can claim anything, of course, but I liked the Ancient Aliens episode on the subject. The guardians of a particular church there are in the job for life and not allowed to leave the compound. The guy on the show had talked to multiple guardians and they all seemed to have very short lifespans in that job, one showing his rather severe cataracts to him and saying the Ark caused them just being near it as it is a "thing of fire". The show and at least one book (The Manna Machine) claims the device to create manna in the Bible was stored in the Ark and had to be removed/cleaned once a week and that was the reason for the Sabbath cycle of collecting twice as much on Friday as it had to be cleaned by the priests before being used again.
The speculation on the show is that the device was actually given to them by angels (which means messenger or intermediary not some spiritual ghost-like being) from an advanced E.T. civilization and that is what kept them alive in the desert all those years and the reactor powering or recharging this device would have likely been stored in the Ark as well and that is that is also what could create a massive charge that could kill someone if they touched the ark without the proper procedure (a way to short the charge safely first) before opening the lid. We know it could be opened safely after assembled because that's where they stored the ten commandments, Aaron's rod and a jar of manna for future generations to see (after the priests removed it and brought it out). Thus, I was only partly kidding with the "security system" bit because in fact, if the ark had to be discharged of some kind of electrical buildup (acting like a capacitor or battery with the angels on top being the two terminals), it is indeed a kind of security system....
Furthermore,
if the Ark is in Ethiopia and in a bad state/condition due to its age, this "reactor" could be leaking quite badly by now some kind of radiation that even at a distance could cause cancer (let alone cataracts) or some kind of radiation poisoning over time, which would explain why the guardians there don't live very long after taking the job despite the fact they claim to not open it or even go in the same room as it.
The show is all speculation, of course, but I'm not certain alien explanations are less plausible than supernatural ones (but kind of takes the fun out of the final scene in Raiders if it were merely a technological device).
That reminds me of the movie Bubba Ho-Tep for some reason.
