The daughter and ex-wife of Boutique nightclub owner Darren Thornburgh have been caught up in a drive-by shooting at their Port Melbourne home, just a week after the nightclub was also shot up.

Police said the shots were fired at the house on Beacon Drive from a four-wheel-drive around 5am this morning.

It’s believed a man got out of the black sedan and fired five shots into the home, before getting back into his car and driving off.

Denise Thornburgh and her 13-year-old daughter were inside at the time, but were uninjured.

The home was targeted around 5am this morning, police said. (9NEWS)

Police are investigating whether the shooting was linked to a shooting at Boutique nightclub last Thursday morning – where the club was sprayed with bullets from a 12-gauge shotgun.

“It would appear certainly that someone is not happy with something that is going on, and is clearly trying to send a message,” Detective Inspector David Griffin said.

“The person who fired the gunshots into that house would have no idea who was behind those windows at the time.”

It’s understood investigators will probe whether Mr Thornburgh is being pursued over debts.

Victoria Police’s anti-bikie taskforce Echo has been notified.

Neighbours said they saw the car drive away with its headlights switched off.

“I heard the first gunshot and there was a few seconds, then three more shots,” neighbour Annie Landers said.