He made his comments before leaving for Moscow, where he again said Iran wanted to "destroy" the Jewish state.
Netanyahu has held a series of discussions with Putin in recent months on Iran's influence in war-torn Syria and in Lebanon, seeking to persuade Russia to limit Iran's presence near Israeli territory and to stop it from entrenching itself militarily in Syria.
Russia, Iran and Lebanon's Shiite Muslim militant group Hezbollah -- which is backed by Tehran -- all support Syrian President Bashar al-Assad in his country's civil war.
"We will also discuss Iran's effort to turn Lebanon into one giant missile site, a site for precision missiles against the state of Israel, which we will not tolerate."
After viewing an exhibition in Moscow dedicated to the 1943 uprising at the Sobibor Nazi death camp, Netanyahu said that Israel is "still ready to prevent any attempts of this type of ideology, in the first place Iran, which speaks of the intention to destroy us".
The two leaders also took part in a Holocaust remembrance ceremony at Moscow's Jewish Museum and Tolerance Center and watched parts of a Russian-made film on the Sobibor uprising.
Putin said modern political and religious leaders should do "everything possible to preserve historical memory in the 21st century and prevent the weeds of nationalist ideology spreading in whatever form it takes: anti-Semitism, Russophobia and other phobias built on hatred".
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