You should be able to modify such conditions (at least temporarily) using a specs file. For example,
Code:
$ gcc -dumpspecs | sed -e 's#/lib/ld-linux.so.2#/path/to/other/loader#g' > specfile
$ gcc -specs=specfile -o test test.c
$ readelf -l test | grep "Requesting program interpreter"
[Requesting program interpreter: /path/to/other/loader]
$ CC="gcc -specs=specfile" ./configure
$ make
…
A more permanent solution would be to pass the correct configure options when building your toolchain in the first place.