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The C-shaped canal system is a rare anatomy variation,which always has more challenge for treatment.And C1-shaped of which is more difficult for clinician due to the variations of root canal anatomy.Thorough debridement and proper obturation is believed to be the challenge for C1-shaped root canal system.A rare case of C1-shaped canal system of a 17-year-old patient in the right mandibular second molar with five main canals is reported here by using dental microscope and cone-beam computed tomography (CBCT).In addition,the appropriate treating strategy was reviewed for C1-shaped root canal system.