Background Colorectal cancer (CRC) is one of the most common malignancies of the gastrointestinal tract, it is very important to find biomarkers that can accurately predict the therapeutic efficacy to accurately grasp the development of the disease, this study aims to investigate the expression and clinical significance of mismatch repair (MMR) protein and programmed cell death 1 ligand 1 (PD-L1) in samples from surgically resected colorectal cancer (CRC) patients. Methods A total of 272 surgically resected CRC patients attending at Drum Tower Hospital of Nanjing University School of Medicine from January 2018 to May 2022 were retrospectively included in the study. Collect surgical excision samples from all patients and record in detail the general data, clinicopathological data, and imaging data of all subjects. Immunohistochemistry (IHC) and Western Blot were used to detect the expression of MSH2, MSH6, MLH1, and PMS2 proteins in the tumor tissue and normal tissue adjacent to the cancer of the resected samples, respectively. X2 test was used to investigate the correlation between the expression of MMR protein and PD-L1 in CRC tumor tissues and the clinicopathological characteristics, then further analyzed the correlation between the deletion of four MMR proteins in CRC tumor tissues, and finally investigated the relationship between the expression of MMR protein and PD-L1 and the prognosis of CRC patients by survival curve and Log Rank test. Results 1. MMR protein expression deletion was correlated with tumor location, differentiation degree, and TNM stage (P < 0.05); while PD-L1 expression was only correlated with TNM stage (P < 0.05). 2. Correlation analysis of MMR protein isoform expression deletion found that PMS2 expression deletion was significantly correlated with MLH1 expression deletion, similarly, MSH2 expression deletion was significantly correlated with MSH6 expression deletion was significantly correlated with MSH6 expression deletion (P < 0.05), in addition, PMS2 expression deletion was also correlated with PD-L1 expression (P < 0.05). 3. The survival time was shorter in dMMR patients compared with pMMR patients. Conclusion Deletion of MMR protein expression and expression of PD-L1 are closely related to clinicopathological characteristics and prognosis of CRC patients, maybe MMR and PD-L1can be potential biomarkers.