His withdrawal means coach Stephen Kearney will have to find another captain for this campaign.
"We know Simon wants to be with us and this decision will be a huge blow for him, as it is for us," says Kearney, who will announce his touring team on Thursday.
"But his long-term health is very important to us, especially with the Four Nations scheduled for next year and, of course, the next World Cup in New Zealand and Australia the following year.
"He's our captain and our leader, but we'll still have a strong leadership team to draw on and his absence this time will give us a chance to develop some other players in that role."
The England tour begins on October 23 with a warm-up game against Leeds Rhinos, with the three tests scheduled for Hull (November 1), London's Olympic Stadium (November 7) and Wigan (November 14).