You will need to contact the issuer of the 1099-MISC and request the Employer ID number. They should also issue you a "Corrected" 1099-MISC with the EIN entered.
If they refuse to give you this information, enter the 1099-MISC without the payer's EIN. It shouldn't cause any problems. If you get an error message when trying to file, then delete the 1099-MISC, and enter it as income not reported on Form 1099-MISC. I very much doubt that it would result in an inquiry from the IRS, but if you receive a letter from them, simply explain the situation and what you did.
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