Today I recommend a free open source program, bookbinder, with it, you can easily create a bindable book from a PDF document.

Bookbinder is a program that will convert a PDF document into signatures suitable for traditional bookbinding.
While there are a lot of programs on the net that will create a single booklet from a small [...]

Here is a Windows command line version PdfSigner with TimeStamp(TSA) support,

Usage pdfsigner InPdf OutPdf Pkcs12KeyStore Pkcs12KeyStorePassword

because It is a demo application, so the TSA server only supports http://tss.pki.gva.es:8318/tsa
If you have interest, please download it here,pdfsigner(4.9M)

PdfCrypt is a windows 32 console/command line version PDF encrypt & decrypt software, supports standard 48 bits, 128 bits, AES-128 bits encryption, and decryption. And first of all,it is free.
Download now(1.84M).
If you need java source code, linux stand alone version, or .net version, please let me know.
It bases on modified version iText 1.5.4 and gcj [...]