While I agree with others that your question right now is much too broad and can't really be answered (except for the "it depends" approach :-)), there is one book I would wholeheartedly recommend for anyone beginning database design in general:
Michael Hernandez: Database Design for Mere Mortals(R): A Hands-On Guide to Relational Database Design
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It's a really hands-on, no-frills, down to earth book and introduces all the major and important concepts in a very understandable, very approachable fashion. Well written, interesting, very sound and useful - highly recommended!
You have some elements of best practices, but there are some things missing.
You seem to be using the word "database" where I would expect you to say "table." Yes, you can and should have multiple tables on your MySQL server. The application I support has over 120 tables, and there are certainly many applications with many more tables. It depends on the complexity of the data you need to store.
Here's a good book to start with: Database Design for Mere Mortals
If you want to get more into the theory behind the practice, I enjoyed SQL and Relational Theory: How to Write Accurate SQL Code 3rd Edition.
And I have to plug my own book: SQL Antipatterns: Avoiding the Pitfalls of Database Programming.
It's commendable that you're willing to jump in to this project, but in my experience trying to do a real project at the same time as you're learning the basics of any technical subject is likely to result in a project that doesn't work. And it takes ten times as long.
So I would recommend spending some time educating yourself first, by doing some reading and some experimentation. Design a practice database and the code to use it, but not the database you need for your project.
Here's a well-regarded book that might help you:
After you are more comfortable with the basics of database design, then you can start your real project.