Crewe's director of football Dario Gradi has vowed to assist the authorities after the club confirmed that he has been suspended on an interim basis.
The Football Association is reportedly investigating claims that Gradi "smoothed over" a complaint of sexual assault against Chelsea scout Eddie Heath as part of its wider inquiry into allegations of historical child sex abuse within the game.
The club confirmed the move on Monday in a short statement: "Following discussions with the Football Association, Crewe Alexandra Football Club can confirm that Dario Gradi is currently under an FA interim suspension from football."
Gradi repeated his denial of any wrongdoing and promised to assist in the investigation.
In his own statement, he said: "Having been notified by the Football Association on 25th November, I acknowledged my current interim suspension from football.
"I would like to reiterate that I will do everything within my power to assist all investigatory authorities.
"As I have previously stated, aside from denying any wrongdoing, it would be inappropriate and unfair on all parties to comment through the media at this time in connection with any allegations.
"I would also like to thank all those people who have come out in support of me. It is very much appreciated."
Last week a former youth player at Chelsea, where Gradi was an assistant coach, claimed he was assaulted by Heath in 1974.
Gradi later joined Crewe in 1983 and was manager there until 2011 before becoming the League Two club's director of football.
FA chairman Greg Clarke has insisted a review led by Clive Sheldon QC would "leave no stone unturned."
Clarke said: "The review has been asked to establish what, if anything, The FA and clubs knew about these allegations at the relevant time and what action was taken or should have taken place.
"It will leave no stone unturned and we will deal with its findings in a transparent and appropriate manner wherever they take us."
However, Liberal Democrat leader Tim Farron has called upon Damian Collins, chair of the Culture, Media and Sport Select Committee, to launch a formal inquiry into the scandal engulfing the game.
He said: "It now seems clear that allegations of sexual abuse were not properly acted upon and that victims have been let down.
"An internal review will not be enough to address the systemic problems facing the FA. A full inquiry should be launched looking at how the Government can radically reform the FA to ensure this never happens again."
Police have revealed that dozens of potential suspects have been identified in connection with historical child sex abuse allegations in football.
According to figures released by the National Police Chiefs' Council (NPCC), 98 clubs spanning all tiers of the game have been "impacted."
The National Society for the Prevention of Cruelty to Children (NSPCC) and local police forces have referred more than 600 reports to Operation Hydrant, the national co-ordination hub for non-recent child abuse allegations.
NPCC lead for child protection Simon Bailey said: "Allegations received by police forces across the country are being swiftly acted upon.
"We are also liaising closely with the Football Association to ensure all relevant information they hold is shared to inform investigations moving forward.
"We continue to urge anyone who may have been a victim of child sexual abuse to report it by dialling 101, or contacting the dedicated NSPCC helpline, regardless of how long ago the abuse may have taken place.
"We will listen and treat all reports sensitively and seriously. Anyone with any information regarding child sexual abuse is also urged to come forward. Please be assured that the information provided will be taken seriously and acted upon."
Meanwhile, Sir Hugh Robertson, chairman of the British Olympic Association, has admitted it would be "foolish" to presume there had been no similar abuse in Olympic sports.
He said: "If I was being candid with you, given what we know about what happened across a number of sectors over a period of time, it would be foolish to presume that it hasn't happened in one or more Olympic sports.
"We would be naive to think we have got away with it, but we know that our own protection measures right now are absolutely where they need to be."