Fig. S3.

Alignment of representative bEBPs with putative c-di-GMP binding site. The alignment was generated with representative sequences from Table 1 and Table S2. Coloring of conserved features (Walker A, Walker B, Loop L1, Loop L2, and R finger) follows the same scheme as introduced in Fig. 1A. C-di-GMP binding motifs are highlighted in red boxes, conserved residues (compared with Pa_FleQ) in these motifs are in bold. Red arrowheads below the alignment point to conserved arginine (or lysine) residues that coincide with arginine residues in FleQ important for c-di-GMP binding. Black arrowheads mark other c-di-GMP–interacting residues identified in the structure. Dashed lines separate sequences by nature of their N-terminal domain as in Table 1 [FleQ-like, REC, GAF, and without recognizable N-terminal domains (-), indicated in the right column]. The first and second column list Uniprot identifiers and residue numbering, respectively. The following sequences were used: A8H297_SHEPA: Shewanella pealeana (strain ATCC 700345/ANG-SQ1); Q15RD1_PSEA6: Pseudoalteromonas atlantica (strain T6c/ATCC BAA-1087); A0A0C5WCX2_9GAMM: Photobacterium gaetbulicola Gung47; Q9KQ66_VIBCH: Vibrio cholerae serotype O1 (strain ATCC 39315/El Tor Inaba N16961); Q3J8M6_NITOC: Nitrosococcus oceani (strain ATCC 19707/NCIMB 11848); Q21IM5_SACD2: Aaccharophagus degradans (strain 2–40/ATCC 43961/DSM 17024); Q74DJ6_GEOSL: Geobacter sulfurreducens (strain ATCC 51573/DSM 12127/PCA); B9M0Q9_GEODF: Geobacter daltonii (strain DSM 22248/JCM 15807/FRC-32); A0R7M9_PELPD: Pelobacter propionicus (strain DSM 2379); S6BIE6_9GAMM: endosymbiont of unidentified scaly snail isolate Monju; D0KXW5_HALNC: Halothiobacillus neapolitanus (strain ATCC 23641/c2) (Thiobacillus neapolitanus); A0A075WZ96_9BACT: Thermodesulfobacterium commune DSM 2178.