PHP is processed server-side, the client (be it a web browser or a search crawler) never sees the code. It doesn't affect it indexibility. indexability? Is that even a word?
One thing to avoid, however, is something along the lines of /index.php?page_id=4 or somesuch. Give your pages descriptive URLs and titles: /availability.php or /new_listings.php.
Also avoid cookie-dependent pages. Both for the search engines and to avoid annoying people that link to you.
Truthfully, this topic is too large for a forum post/response chain. There are literally thousands of guides to this sort of thing that would do a better job than any of us could here.
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