PROTEINS: Structure, Function, and Genetics 51:8595 (2003) BATMAS30: Amino Acid Substitution Matrix for Alignment of Bacterial Transporters Roman A. Sutormin,1* Aleksandra B. Rakhmaninova,2 and Mikhail S. Gelfand1,2 1 State Scientific Center GosNIIGenetica, Moscow, Russia 2 Integrated Genomics, Moscow, Russia ABSTRACT Aligned amino acid sequences of three functionally independent samples of transmembrane (TM) transport proteins have been analyzed. ... Most TM-kernels are central parts of TM-segments. ...