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Certificate Installation: Exchange 2010 (PowerShell)
Once you receive your certificate issuance ZIP file, extract the file(s) contained in the ZIP file to the server. We recommend extracting these to the Desktop or a new directory all together.Option 1
From the Exchange Management Shell, run the following command to install the server, root, and intermediate certificates to their respective certificate stores:
Import-ExchangeCertificate -FileData ([Byte[]]$(Get-Content -Path c:\certificates\YOUR_CERTIFICATE.cer -Encoding byte -ReadCount 0)) Note: If you received .crt(s) instead of one .cer file, then you will want to ensure that YOUR_CERTIFICATE.cer is YOUR_ORDER_NUMBER.crt or YOUR_FQDN.crt. As a result of this format, you may need to install the Root & Intermediate certificate(s) on your server manually. See Related Articles section of this document for more details on how to do this.
Make sure there are no spaces in your path. As a result of running this command, it should output a thumbprint. (In the event you've lost your thumbprint, you can copy it from the MMC Certificates Snap-in.)
Then, to enable the services, run the following:
Enable-ExchangeCertificate -Thumbprint $your_thumbprint -Services "POP,IMAP,SMTP,IIS" (This assumes that you'll be running the above services)
Option 2
Alternatively you can run the following command to import & enable services in one line.
Import-ExchangeCertificate -FileData ([Byte[]]$(Get-Content -Path c:\certificates\YOUR_CERTIFICATE.cer -Encoding byte -ReadCount 0)) | Enable-ExchangeCertificate -Services "IIS,POP,IMAP,SMTP" 
