Versatile Video Coding (VVC) is the latest video coding standard developed by Joint Video Exploration Team (JVET). In VVC, the quadtree plus multi-type tree (QT+MTT) structure of coding unit (CU) partition is adopted, and its computational complexity is considerably high due to the brute-force search for recursive rate-distortion (RD) optimization. In this paper, we aim to reduce the time complexity of inter-picture prediction mode since the inter prediction accounts for a large portion of the total encoding time. The problem can be defined as classifying the split mode of each CU. To classify the split mode effectively, a novel convolutional neural network (CNN) called multi-level tree (MLT-CNN) architecture is introduced. For boosting classification performance, we utilize additional information including inter-picture information while training the CNN. The overall algorithm including the MLT-CNN inference process is implemented on VVC Test Model (VTM) 11.0. The CUs of size 128×128 can be the inputs of the CNN. The sequences are encoded at the random access (RA) configuration with five QP values {22, 27, 32, 37, 42}. The experimental results show that the proposed algorithm can reduce the computational complexity by 11.53% on average, and 26.14% for the maximum with an average 1.01% of the increase in Bjøntegaard delta bit rate (BDBR). Especially, the proposed method shows higher performance on the sequences of the A and B classes, reducing 9.81%~26.14% of encoding time with 0.95%~3.28% of the BDBR increase.