To know more about each of the commands, see the relevant man pages. For full descriptions of the files installed, see also the following documentation.
Chapter 14, Directory Server File Reference, in Sun Java System Directory Server Enterprise Edition 6.2 Reference covers files installed with Directory Server, and files created for server instances.
Chapter 25, Directory Proxy Server File Reference, in Sun Java System Directory Server Enterprise Edition 6.2 Reference covers files installed with Directory Proxy Server, and files created for server instances.
Appendix A, Directory Server Resource Kit File Reference, in Sun Java System Directory Server Enterprise Edition 6.2 Reference covers files installed with Directory Server Resource Kit.