Two feruloyl esterase gene sequences of Burkholderia phytofirmans were retrieved from the NCBI database,destinated as Bpfae1 and Bpfae2. Nucleic acid and amino acid sequence were analysed by bioinformatics method, and the secondary and three-dimentional structure were also predicted respectively. The results show that the Bpfae1 gene full-length is 1671bp,it encodes a 556aa amino acid, which has an isoelectric point of 8. 33,molecular weight of 59978. 22Da. The Bpfae2 genn full-length is 1734bp,it encodes a 577aa amino acids, which has an isoelectric point of 5. 42, molecular weight of 59339. 25Da. Sequence alignment results show that,homology of Bpfae1 with Burkholderia xenovorans was up to 90%. Bpfae2 and Burkholderia glumae has 83% homology,while the homology of these two proteins was only 29%. At last the three-dimensional structure of these two enzymes were modeling.