The Egyptian Coptic Church and the health ministry reported 41 dead and 14 injured in the blaze before emergency services said they had brought the blaze under control.
Egyptian archaeologists have discovered the five tombs northeast of the pyramid of King Merenre I, who ruled Egypt around 2270 BC.
The man was shot during clashes with the police who were dispersing anti-government demonstration in a village in Giza. A security source said an investigation was launched into the killing.
Officials say South Africans and Egyptians are among those injured when an explosive device went off, hitting the bus in Giza.
Three Vietnamese holidaymakers and an Egyptian tour guide killed in a roadside bomb blast near Giza pyramids outside Cairo, officials say.
Egypt's archaeological team has found silos containing animal bones and food, indicating human habitation as early as 5,000 BC. That would be some 2,500 years before the Giza pyramids were built.
The figure from the interior ministry is lower than a toll given earlier by security and medical sources who had said more than 50 Egyptian security personnel had been killed in the clashes which began on Friday night.
The operation came just a day after at least 23 soldiers were killed in a Daesh attack that targeted two military checkpoints in the region.
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