Setting Up an Email Account on iPhone

From the Home screen choose Settings > Mail > Accounts > Add Account.
Choose your email account type: Other, select a server type: POP and enter your account information.
Enter your full email address
The email server type POP or IMAP
The Internet host name for your incoming mail server: Mail.Colony1.Net
The Internet host name for your outgoing mail server: Mail.Colony1.Net
Your user name (full email address) and password

Once that is complete, please go to Settings > Mail and then click on the account you just created. In here, scroll to the bottom and the click Advanced.

Under Incoming settings, make sure the Use SSL section is checked ON.

Now, go to Authentication and make sure that it is set to Password.
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How do I configure my POP mail client to leave a copy of my messages on the server
Go to Advanced > Delete From Server option.
Verify that 'Remove copy from server after retrieving a message' is UNCHECKED, and optionally choose a set amount of days.

Note: Changes you make on iPhone to an email account synced from your computer are not copied to your computer

Additional Resources
http://docs.info.apple.com/article.html?artnum=305882
http://manuals.info.apple.com/en/iPhone_User_Guide.pdf