Biotinylated surface-exposed proteins of <i>R. rickettsii</i> analyzed by ESI-MS/MS.

aThe National Center for Biotechnology Information (NCBI, http://www.ncbi.nlm.nih.gov/). Data were retrieved on March 4, 2013. bThe signal peptide was predicted using SignalP 4.1 web server (http://www.cbs.dtu.dk/services/SignalP/). Websites were accessed on March 4, 2013. cThe transmembrane strands and the topology of beta-barrel outer membrane proteins of R. rickettsii were predicted using the PRED-TMBB web server (http://bioinformatics.biol.uoa.gr/PRED-TMBB), which is based on a Hidden Markov Model, trained according to the Conditional Maximum Likelihood criterion. A score less than 2.965 indicated that the protein may be a membrane protein. Data were retrieved on March 7, 2013. dThe ions score is presented as -10*Log (P), where P is the probability that the observed match is a random event. Individual ions scores >54 indicate identity or extensive homology (P<0.05). Protein scores are derived from ions scores on a non-probabilistic basis for ranking protein hits. eThe Pfam-A was used to predict the family of the protein, Pfam does not allow any amino-acid to match more than one Pfam-A family(http://pfam.sanger.ac.uk/), unless the overlapping families are part of the same clan. In cases where two members of the same clan match the same region of a sequence, only one match is show, that with the lowest E-value. The E-value cut-off in Pfam-A search was set to 1.0. Data were retrieved on July 19, 2013.