@newarray = $hash{ $w1 }->{ $w2 }->{ words };

Be aware that after initializing your hash as you did, this will return a hash ref. You can pull out the data like this:

$hashref = $hash{ $w1 }->{ $w2 }->{ words };
foreach my $k (keys %$hashref) {
    print " * $k: $hashref->{$k}\n";
}
[download]

as an example.

Perhaps if you want an array, perhaps all you want is the keys?