Japanese culture still seems to prize intelligence, whereas places like the US require you to hide it some of the time. It's almost like they're an entire nation of nerds.
I've noticed intelligence is respected but conformity is respected much, much more.
From a recent article titled "Why Apple isn't Japanese"
"One notorious case in point involves Shuji Nakamura, the brilliant scientist who invented a revolutionary energy-saving blue-diode light source only to find himself mired in years of litigation as he struggled to extract royalty payments from the company that had profited from his invention. Nakamura ultimately abandoned Japan for California. Fasol recalls asking scientists at the University of Tokyo if they considered his departure a blow. " 'No, not at all,' they told me. 'It might be good to have someone more ordinary'." "
As someone who knows a lot about Japan, I can tell you that you're partially wrong. Japanese culture prizes intelligence as much as Western culture: only in those circles that would appreciate it.
Read up on traditional Japanese saying: "The Nail that Sticks Up will be hammered down." and conformity of Japanese culture.