Heat shock proteins 90 (Hsp90) are a kind of specific proteins in plant which were produced under environmental stresses. By referring to the tomato genome database, we identified and analyzed Hsp90 gene family members using bioinformatics methods. Results indicated that the tomato genome contained at least 7 Hsp90 genes, which were distributed unevenly on 6 chromosomes. Amino acid sequence length of these proteins ranged from 267 to 794aa. Numbers of intron ranged from 2 to 19. Microsynteny analysis showed that two pairs of Hsp90 genes (Hsp90-1and Hsp90-3, Hsp90-5 and Hsp90-7) were identified by segment duplication. In addition, multiple conservation motifs were found in Hsp90 proteins. Phylogenetic analysis revealed that Hsp90 genes from tomato, rice and Arabidopsis can be divided into 5 groups. Three pair of orthologous genes and four pairs of homologous genes were found. Expression analysis based on RNA-seq showed that the expression of three genes (Hsp90-5, Hsp90-6 and Hsp90-7) was high in vegetable and reproductive organs, while the expression of other four genes (Hsp90-1, Hsp90-2, Hsp90-3 and Hsp90-4) was relatively low except for its expression at the breaking stage of fruit. Analysis of promoter regions of Hsp90 genes showed that multiple cis-elements were involved in plant responses to biotic and abiotic stresses. The expression of 7 genes under heat stress was also detected by qRT-PCR. Expression of all Hsp90 genes in tomato leaf was enhanced. The results indicated that these genes could be participated in tomato leaf response to heat stresses. Together, these results will lay a foundation for analyzing Hsp90 gene function and molecular evolution in the future.