The 36-year-old, who is the second in line to the British throne, also toured the museum at the site perched on a forested hillside.
During his walk through the town, William was later greeted by a 2ft by 3ft enlargement of the now famous picture of his wife and her family. "She is very upset that I am coming here without her".
William, who flew into Israel from Jordan, will also visit the Church of St. Mary Magdalene and the tomb of his great-grandmother, Princess Alice, who sheltered a Jewish family in Greece during World War Two. His great grandmother Princess Alice, is recognised by Yad Vashem as Righteous among the Nations for hiding Jews during the Shoah.
Yad Vashem, whose Hebrew name literally means a monument and a name, is dedicated to preserving the memory of the six million Jews murdered by the Nazis and of the many Gentiles who aided them.
Henry Foner, 86, and Paul Alexander, 80, were among thousands of Jewish children taken in by Britain as part of the 1930s "Kindertransport" from a continental Europe that was falling to German conquest.
While the Duchess of Cambridge is at home with their three kids - Prince George, Princess Charlotte and Prince Louis - the Duke paid tribute to his wife of seven years by recreating one of her childhood photos - over thirty years after it was taken!
The Duke of Cambridge is now on a five-day tour of Israel and spoke with Reuven Rivlin at his official residence.
World Cup or Eurovision, Iceland keep on hoping
Without the five-time World Player of the Year, though, it is highly unlikely Argentina would even have qualified. But others remained confident that Messi and the team will rise to the occasion.
Later in the day, the prince will see Prime Minister Benjamin Netanyahu and President Reuven Rivlin before heading to Jaffa and Tel Aviv on the Mediterranean coast to meet young people participating in a football-based youth programme.
The prince will try to deftly dodge politics as he later visits east Jerusalem, which Israel captured in the 1967 Mideast war and annexed in a move not internationally recognized.
William's marks the first time a member of Britain's royal family visited Israel as an official representative of the London government. The Palestinians claim east Jerusalem as their future capital.
The prince wrapped up the busy day with a reception held by the British ambassador that included demonstrations by Israeli tech startups and which was attended by Israeli celebrities, politicians and other public figures.
Although not confirmed, local Israeli media have been speculating about Prince William visiting the three major religious sites in Jerusalem; the Church of the Holy Sepulchre, the al-Aqsa Mosque and the Dome of the Rock on the Temple Mount, and the Western Wall.