The six-unit Virgin Megastore chain will close two more stores, the Union Square location in New York City at the end of May and the Market St. store in San Francisco at the end of April, sources say….

In August 2007, the Virgin Entertainment Group North America was acquired by two real estate companies–the Related Cos. and Vornado. Since then, the chain has been reduced from 11 units–with the industry awaiting word of the fate of the three remaining stores in Denver, Los Angeles, and Orlando, Fla.”

At this point the real news should be when people buy music at brick-and-mortar outlets at all. They still do: CD sales continue account for the majority of big music’s revenues.

But as the handful of remaining music stores vanishes, and the big boxes like Wal-Mart (WMT) and Best Buy (BBY) keep cutting back the space they allot to discs, that won’t remain true for long.

Last June, a Vornado executive told Reuters that the store would shut down in the first quarter of 2009. The decision to close the store appears related to real estate and the value connected to the location. That executive was quoted as saying that Virgin pays only $54 per square-foot when the market rent in the area is about $700 a square foot.

So, while the store, which does an estimated $55 million in annual volume, is profitable to the tune of $6 million, according to sources, the space would be even more profitable for its owner with a higher rent tenant. Vornado bought the 180,000 square foot retail component of the Bertelsmann building, which houses the Times Square store, in 2006, and will lease the space to Century 21, according to reports.

The closure leaves the Virgin chain with five stores, and one of them, the Union Square store in New York, will now be the city’s premiere record store, with an estimated $40 million annual volume. But the status of that store is also at question as the Related Cos. and Vornado leased the ground floor of the store to Nordstrom Rack for the holiday season, only to have the deal fall through.”

I get that the decision appears to be “related to real estate,” but it’s really about the health–or lack thereof–of bricks-and-mortar music retail. If the No. 1 store in the country can’t make it, and if New York City’s “premiere record store” rented out a floor during the peak sales season, then why is anyone bothering to sell CDs in stores, period?

Plenty of retail executives seem to be asking themselves the same question, and are responding by cutting the small space they’ve devoted to CDs even further. The exceptions: Special promotions for exclusive albums, like Wal-Mart’s (WMT) successful push for the new AC/DC album last year, and Best Buy’s (BBY) unsuccessful gambit with Guns N’ Roses.

[Image Credit: Troshy]