"The site is not functioning. The reasons are being clarified," the embassy's press attache Evgeny Piskunov told RIA Novosti.
Piskunov said technical work was underway with the Israeli providers to restore the Russian diplomatic mission's website.
The embassy’s Russian- and English-language consulate pages have been left unharmed.
The cyberattack comes two weeks after Russian Communications and Mass Media Minister Nikolay Nikiforov’s Instagram account was breached for several hours, with images of Turkish flags and leaders posted on his account.
Hackers briefly took down Moscow’s Lokomotiv football club’s official website the following day.
A Turkish hacking collective announced late last month it was ready to launch cyberattacks on Russian websites.