Does anyone have DB internal book recommendation that inst' boring as hell.
Fair warning: this is not for beginners. If you find the going too hard, start with a DB textbook.
Also, that site doesn't seem to include the papers themselves. But most of those papers are very famous, so if you search for the titles, you should find copies. Worst case, you might need to visit a university library.
which one can teach how to build a DB system from scratch? I'm not talking about SQL theory or implementing a SQL parser but the actual persistence, indexing part.
A reasonable approach might be to start with this high-level paper, and follow papers they reference until they get specific enough to address your specific questions:
Joseph M. Hellerstein, Michael Stonebraker, James Hamilton.
Architecture of a Database System. Foundations and Trends in Databases, 1, 2 (2007).
Another system that might be worth studying is SQLite.
Transaction Processing: Concepts and Techniques (The Morgan Kaufmann Series in Data Management Systems)
It's specific to MS SQL Server but I found the chapters on log file management, indexes & isolation levels to be accessible and enjoyable.