The Greenbank under-10s B team have the internationally renowned band's name on their shirts along with the band's motif - a skull named Snaggletooth.
The North Hykeham team also run out to the band's famous Ace of Spades track.
Team manager Gary Weight said the deal came about as he used to know lead singer Lemmy.
"It was from a bizarre idea one evening. I sent an email off to them and they came back and said it was a great idea.
"I knew Lemmy years ago and for him, I think the thought of a football team running out with the Motorhead logo made him chuckle a bit, so that's where it's come from," said Mr Weight.
He is hoping the deal will draw inspired performances from his team.
"The hope is that we can go out on the football pitch and terrorise the opponents and come away worthy winners," he said.
The junior players will have a team photograph taken with the band ahead of their Rock City gig in Nottingham on 19 November.
