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. 2018 Feb 12;9:46. doi: 10.3389/fmicb.2018.00046

Table 3.

Specificity groups identified and their consensus motifs of P1 and P2 determined from characterized CDPSs.

Specificity group (*) Consensus motif for P1 Consensus motif for P2
cWW (NYH) (9 / 22) graphic file with name fmicb-09-00046-i0001.jpg graphic file with name fmicb-09-00046-i0017.jpg
cLL (NYH) (10 / 123) graphic file with name fmicb-09-00046-i0002.jpg graphic file with name fmicb-09-00046-i0018.jpg
cCC (NYH) (11 / 60) graphic file with name fmicb-09-00046-i0003.jpg graphic file with name fmicb-09-00046-i0019.jpg
cAE (XYP) (8 / 55) graphic file with name fmicb-09-00046-i0004.jpg graphic file with name fmicb-09-00046-i0020.jpg
cYY (NYH) (6 / 145) graphic file with name fmicb-09-00046-i0005.jpg graphic file with name fmicb-09-00046-i0021.jpg
cFX (NYH) (8 / 31) graphic file with name fmicb-09-00046-i0006.jpg
cW2X (NYH) (7 / 34) graphic file with name fmicb-09-00046-i0007.jpg
cPX (NYH) (5 / 9) graphic file with name fmicb-09-00046-i0008.jpg
cLE (XYP) (2 / 19) graphic file with name fmicb-09-00046-i0009.jpg graphic file with name fmicb-09-00046-i0022.jpg
cGE (XYP) (1 / 7) graphic file with name fmicb-09-00046-i0010.jpg graphic file with name fmicb-09-00046-i0023.jpg
cAA (XYP) (2 / 33) graphic file with name fmicb-09-00046-i0011.jpg graphic file with name fmicb-09-00046-i0024.jpg
cGG (XYP) (1 / 17) graphic file with name fmicb-09-00046-i0012.jpg graphic file with name fmicb-09-00046-i0025.jpg
cLI/cLL (XYP) (4 / 34) graphic file with name fmicb-09-00046-i0013.jpg graphic file with name fmicb-09-00046-i0026.jpg
cCX (NYH) (12 / 61) graphic file with name fmicb-09-00046-i0014.jpg
cW1X (NYH) (12 / 36) graphic file with name fmicb-09-00046-i0015.jpg
cXE (XYP)a (9 / 81) graphic file with name fmicb-09-00046-i0027.jpg
cAX (XYP)a (10 / 88) graphic file with name fmicb-09-00046-i0016.jpg

Specificity groups are named according to the main cyclodipeptide synthesized; the family NYH or XYP of the CDPSs forming the group is indicated. The numbers in brackets (*) correspond to the number of CDPSs experimentally characterized vs. the total number of CDPSs in the group (Last up-date: June 2017). Groups for which less than five CDPSs have been experimentally characterized are labeled in blue. Sequence motifs correspond to residues suspected to delineate P1 and P2, determined for each CDPS (see Supplemental Data Set 4 and Table S2). They are presented as logo, corresponding to the frequency plot of amino acid at the different positions of P1 and P2 for characterized enzymes of the specificity group (see also Table S2 for comparison with logos obtained with enzymes of the whole specificity group). Degenerated positions are indicated in gray, amino acids likely to be essential for specificity are indicated in red.

a

The consensus motif for cXE was obtained using cAE, cLE and cGE groups of CDPSs, that for cAX was obtained using cAE and cAA groups.