It will always show the primary version as 5.6. As long your domains are set to 5.4, the scripts on those domains should run under 5.4. It should take effect nearly instantly.
It's working fine now. But there is a problem, the converted image from pdf is blotted. I'll attach the image of both the original PDF(Img1) and the Converted image (Img2). Could you please suggest me any reason for this because in Stevie it was working fine.