FIG. 2.

Alignment of Rd sequences. The names of the peptides are explained in the text (Alk related) or below. In most cases the accession number is shown with the strain abbreviation. The first group of sequences includes the AlkG2-type Rds, the second group includes the AlkG1-type Rds, and the third group contains the remaining Rds. In several cases the sequence was truncated for the alignment. The position of the first amino acid in the full-length protein is indicated. A V in the second line marks the hydrophobic core residues. Features discussed in the text are shaded. ANAVA, Anabaena variabilis; ARCFU, Archaeoglobus fulgidus; AZOCH, Azotobacter chroococcum (strain mcd 1); AZOVI, Azotobacter vinelandii; BRAJA, Bradyrhizobium japonicum; BUTME, Butyribacterium methylotrophicum; CHLLT, Chlorobium limicola f. sp. thiosulfatophilum; CLOBU, Clostridium butyricum; CLOCE, Clostridium cellulolyticum; CLOPA, C. pasteurianum; CLOPE, Clostridium perfringens; CLOST, Clostridium sticklandii; CLOTS, Clostridium thermosaccharolyticum; DESBA, Desulfoarculus baarsii; DESGI, Desulfovibrio gigas; DESVM, Desulfovibrio vulgaris (strain Miyazaki); DESVU, Desulfovibrio vulgaris; ECOLI, E. coli K-12; GUITH, Guillardia theta; HELMO, Heliobacillus mobilis; MEGEL, Megasphaera elsdenii; METJA, Methanococcus jannaschii; METTH, Methanobacterium thermoautotrophicum; NEIME, Neisseria meningitidis; PEPAS, Peptostreptococcus asaccharolyticus; PSEHY, Pseudomonas hydrogenovora; PYRAB, Pyrococcus abyssi (strain Orsay); PYRFU, P. furiosus; RALEU, Ralstonia eutropha; RHILV, Rhizobium leguminosarum bv. viciae; RHOCA, Rhodobacter capsulatus; RHOSP, Rhodobacter sphaeroides; RHOCI, Rhodococcus sp. CIR2; SYNEC, Synechocystis sp.; THEMA, Thermotoga maritima; TREPA, Treponema pallidum. A number of sequences are from unfinished genomes and have no accession numbers yet: PSEPU1 and PSEPU2, P. putida KT2440; LEGPN, Legionella pneumophila; NEIGO, Neisseria gonorrhoeae.