deb package with structure (project (bin(source)) DEBIAN(control)) can be created
But want to create deb package without bin directory instead there r multiple directories and source file inside the project, can't change files location.
Can i make modification so it wouldn't look for the bin folder instead check all files and directories for deb package creation?
yes.
there's plenty of online and offline documentation for creating Debian packages (and your question is broad enough to indicate that you just need to re-read the docs)
E.g. apt-get install packaging-tutorial maint-guide
(The maint-guide aka "Debian New Maintainer's Guide" is available in about a dozen languages, in case you don't like the English version)