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Fig. 1 | BMC Microbiology

Fig. 1

From: Consensus computational network analysis for identifying candidate outer membrane proteins from Borrelia spirochetes

Fig. 1

Computational framework for predicting OM-localized, β-barrel proteins from B. burgdorferi B31. All proteins encoded on the B. burgdorferi B31 chromosome were subjected to filters as shown. The following steps outline the computational framework utilized in the study: (1) proteins predicted to be spirochaetal lipoproteins were discarded, (2) proteins predicted to contain transmembrane α-helices by one of two programs were discarded, (3) proteins predicted to be OM-localized by one of two programs were retained, (4) proteins predicted to form a β-barrel by at least one of four or two of four β-barrel prediction programs depending on if the sequences was predicted to be OM-localized by two or one of the OM-localization programs were retained, (5) proteins orthologous to known non-OMPs were discarded, (6) proteins predicted to have a N-terminal signal peptide by at least one of four programs were retained, and (7) the remaining proteins were categorized by the number of programs predicting OM-localization or propensity to form a β-barrel. The number of sequences remaining after each filter are indicated. Proteins were removed from the candidate OMP list if the sequence was not predicted to be OM localized and have β-barrel conformation by three of the following six algorithims: CELLO, pSORTb, HHOMP, TMBETADISC-AAC, PRED-TMBB, and BOMP

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