Here are some examples from Washington, DC.
This Target is in the Columbia Heights neighborhood. The Target occupies the two upper floors, while smaller shops occupy the bottom.
There is a Best Buy in the same building.
This Best Buy is in the Tenleytown neighborhood. It's a mixed-use building with Best Buy on the lower floor and housing above.
WalMart is working on building four stores in DC. One of them is in what you might call a vertical power center with a couple of other big boxes stacked on top of each other, but still basically in a suburban layout. I won't picture that one, because it isn't urban. The other three qualify, especially this one which is on the fringes of downtown:
Small scale retail lining the sidewalk and apartments above. Very impressive, if it gets built.
The 3rd and 4th are similar. Both are stand alone one-story buildings with parking underground below the store. Both are fundamentally urban and greet the street, but lack helpful touches like small scale lining retail and mixed-use. This one is in the Brightwood neighborhood on Georgia Avenue:
The reception for that Brightwood store has been pretty positive. The design is interesting enough to compensate somewhat for the lack of lining retail, and the store isn't very wide to begin with (it's deep).
Finally, this one is Capitol Heights (east of the Anacostia River) along East Capitol Street. Although it is similar to the Brightwood store it is worse in a number of ways. The architecture is much less engaging and more like a strip mall. Whereas Georgia Avenue in Brightwood is an urban street lined with historic buildings on either side and across from the Walmart, East Capitol street lacks all that; it's much less dense and much less commercial. Also, the Capitol Heights stores is much much wider (less deep), has less interesting architecture, and has more landscaping. So while the Capitol Heights and Brightwood stores are both one story with underground parking, this one comes off as much more suburban: