Hacked by aLpTurkTegin, help patching this hole

[Mifa <mifa () stangercorp com>]

Our website was defaced by aLpTurkTegin.  We are running apache, php ect.  Does anyone know how this hacker is getting 
in and what I can do to prevent this?

Our main web directory had all but one file deleted and hackedIndex.php, a.asp(a 0 byte file) and trustscn_put_test2 
were placed into the main directory.  The fact that the webserver served hackedindex.php makes me think its a apache 
web server flaw.

Any comments, suggestions?
Thanks, -D

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