A method of establishing communication connection between a mobile device and a secure element, the method comprising the following steps: when the mobile device detects that there is a secure element which establishes a physical connection with it, the mobile device performs a secure authentication on the secure element; if the secure authentication passes, the mobile device determines whether there is configuration information inside it which is required for establishing the communication connection between the mobile device and the secure element; and if there is the required configuration information inside the mobile device, the mobile device uses the configuration information to establish the communication connection with the secure element; otherwise, the mobile device obtains required configuration information from the secure element to establish the communication connection with the secure element, wherein the mobile device performs the secure authentication on the secure element in the following manner: sending randomly generated authentication information to the secure element; and determining whether the secure authentication passes by verifying a verification code received from the secure element, wherein the verification code is generated according to the authentication information, wherein the secure element generates the verification code in the following manner: using a secret key shared by a secure authentication unit comprised within the mobile device and the secure element to conduct an encrypting operation on the authentication information for one or more times, wherein the number of times of the encrypting operation has a correspondence to count values of counters in the secure authentication unit and the secure element, and the secure authentication unit changes the count values of the counters inside it in the same way as the secure element after the encrypting operation is completed. when the mobile device detects that there is a secure element which establishes a physical connection with it, the mobile device performs a secure authentication on the secure element; if the secure authentication passes, the mobile device determines whether there is configuration information inside it which is required for establishing the communication connection between the mobile device and the secure element; and if there is the required configuration information inside the mobile device, the mobile device uses the configuration information to establish the communication connection with the secure element; otherwise, the mobile device obtains required configuration information from the secure element to establish the communication connection with the secure element, wherein the mobile device performs the secure authentication on the secure element in the following manner: sending randomly generated authentication information to the secure element; and determining whether the secure authentication passes by verifying a verification code received from the secure element, wherein the verification code is generated according to the authentication information, sending randomly generated authentication information to the secure element; and determining whether the secure authentication passes by verifying a verification code received from the secure element, wherein the verification code is generated according to the authentication information, wherein the secure element generates the verification code in the following manner: using a secret key shared by a secure authentication unit comprised within the mobile device and the secure element to conduct an encrypting operation on the authentication information for one or more times, wherein the number of times of the encrypting operation has a correspondence to count values of counters in the secure authentication unit and the secure element, and the secure authentication unit changes the count values of the counters inside it in the same way as the secure element after the encrypting operation is completed. using a secret key shared by a secure authentication unit comprised within the mobile device and the secure element to conduct an encrypting operation on the authentication information for one or more times, wherein the number of times of the encrypting operation has a correspondence to count values of counters in the secure authentication unit and the secure element, and the secure authentication unit changes the count values of the counters inside it in the same way as the secure element after the encrypting operation is completed.