Dual fuel customers will face an increase of £48 when the price increase comes in effect on January 18.
Electricity only customers will see their average bill go up by 3.7% or around £20 a year and gas only customers will see their bills go up by an average of 4.6%, or £37 a year.
E.On UK chief executive, Tony Cocker, said the bill increase was down to the company facing extra costs, but it was important for the firm to "continue to deliver a sustainable future for all of our employees and maintain our investment in the UK".
He said: "There is no escaping the simple fact that any price rise is unwelcome news for customers.
"We know that, which is why we have held off for longer than most of our competitors and worked hard to keep our rise as low as possible. However, now more than ever the help we offer our customers, in terms of advice and practical measures, is absolutely vital."
The other 'Big Six' energy suppliers opted to increase energy bills earlier in the year. SSE increased its prices by 8.2% on November 15 with British Gas closely following with a 9.2% on November 23. Scottish Power then increased its average energy bill price by 8.6% on December 6, and nPower by 10.4% on December 1.
E.On will join EDF Energy in rising bills in January, with EDF Energy set to increase bills by 3.9% on January 3.
Latest gas and electricity news brought to you by UK Power - the energy price comparison site.
Click here to run an energy price comparison, and see if you could be paying less for your gas and electricity.