Case I: multi-subunit enzyme complexes. EC 188.8.131.52 and six gamma-proteobacteria species were selected: Escherichia coli K-12 MG1655 (eco), Salmonella typhi CT18 (sty), Salmonella typhimurium LT2 (stm), Yersinia pestis CO92 (ype) Shewanella frigidimarina (sfr), Chromohalobacter salexigens (csa). Initial pathway reconstruction detected only alpha subunits in Shewanella frigidimarina and Chromohalobacter salexigens. BAG separated alpha subunits from beta subunits clearly. After CSR-HMM search using beta subunits proteins as queries, two candidate beta subunit proteins are detected (Sfri_1425 in Shewanella frigidimarina and Csal_1261 in Chromohalobacter salexigens).