Table 2.
Results of BLASTx comparison of predicted ORFs from eps and rfb gene clusters with the NCBI Entrez nucleotide database
| ORF (no. of aa)a | Position (nt)b | Protein(s) with highest homology (GenBank accession no.) | Predicted domain(s) or superfamily in encoded ORF (identification no.)c | Organism | Amino acid identity (%) |
|---|---|---|---|---|---|
| orf1 (62) | 6746–6934 | Putative priming glycosyltransferase (YP_008122775.1) | Bacterial sugar transferase (Pfam 02397); exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase (TIGR03025) | Lactobacillus plantarum 16 | 77 |
| orf2 (322) | 6949–7917 | Glycosyltransferase family 8 (WP_003663531) | Glycosyltransferase family 8 (Pfam 01501) | Lactobacillus reuteri | 36 |
| eps4G (232) | 7956–8654 | Putative ribitol phosphotransferase (CAI34193.1) | CDP-alcohol phosphatidyltransferase (cl00453) | Streptococcus pneumoniae | 51 |
| Eps4G (AAN63683) | Streptococcus thermophilus | 48 | |||
| epsH (341) | 8680–9705 | EpsH (NP_053026) | Glycosyltransferase family 11 (Pfam 01531) | Lactococcus lactis subsp. cremoris | 33 |
| welL (323) | 9744–10715 | Putative glycosyltransferase (WP_003566665) | Glycosyltransferase family A (cl11394) | Lactobacillus casei | 35 |
| WelL (CCC15461) | Lactobacillus pentosus IG1 | 34 | |||
| wzx (463) | 10778–12169 | Putative polysaccharide biosynthesis protein (WP_003676723) | Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins (cd13128); polysaccharide biosynthesis protein (pfam01943), RfbX (COG2244) | Lactobacillus reuteri | 36 |
| Flippase (WP_002911476) | Streptococcus sanguinis | 27 | |||
| eps11O (369) | 12195–13304 | Eps11O, putative polysaccharide polymerase (AAN63798) | No domains | Streptococcus thermophilus | 27 |
| orf8 (226) | 13596–14276 | UDP-d-galactose:(glucosyl)lipopolysaccharide-1, 6-d-galactosyltransferase (YP_001844233) | Glycosyltransferase_GTB_type (cl10013) | Lactobacillus fermentum IFO 3956 | 42 |
| cps2A (256) | 14522–15292 | Exopolysaccharide biosynthesis protein (YP_008122772); | Chain length determinant protein (pfam02706); capsular polysaccharide biosynthesis protein (COG3944) | Lactobacillus plantarum 16 | 95 |
| Exopolysaccharide biosynthesis protein Cps2A | Lactobacillus plantarum WCFS1 | 92 | |||
| wzz (239) | 15304–16023 | Exopolysaccharide biosynthesis protein, chain length determinant Wzz (CCC15467) | Capsular exopolysaccharide family (TIGR01007); chain length determinant protein tyrosine kinase EpsG (TIGR03029); exopolysaccharide transport protein family (TIGR01005); exopolysaccharide/PEP-CTERM locus tyrosine autokinase (TIGR03018) | Lactobacillus pentosus IG1 | 97 |
| capC (257) | 16010–16783 | Capsular polysaccharide biosynthesis protein (CCC15468) | Capsular polysaccharide biosynthesis protein CapC (COG4464) | Lactobacillus pentosus IG1 | 91 |
| Polysaccharide biosynthesis protein, phosphotyrosine-protein phosphatase (YP_008122774) | Lactobacillus plantarum 16 | 94 | |||
| tnp (309) | 17355–18284 | IS30 family transposase (YP_795436) | Transposase and inactivated derivatives, IS30 family (COG2826) | Lactobacillus brevis ATCC 367 | 99 |
| rfbA (289) | 18438–19307 | Glucose-1-phosphate thymidylyltransferase | Glucose-1-phosphate thymidylyltransferase, short form, RmlA (TIGR01207); dTDP-glucose pyrophosphorylase RfbA (COG1209) | Lactobacillus plantarum | 99 |
| rfbC (193) | 19311–19892 | dTDP-4-dehydrorhamnose 3,5-epimerase (YP_003062617) | dTDP-4-dehydrorhamnose 3,5-epimerase, RmlC (TIGR01221); RfbC (COG1898) | Lactobacillus plantarum JDM1 | 99 |
| rfbB (342) | 19902–20930 | dTDP-glucose 4,6-dehydratase (YP_004889090) | dTDP-d-glucose 4,6-dehydratase, RfbB (COG1088) | Lactobacillus plantarum WCFS1 | 99 |
| rfbD (280) | 20963–21805 | dTDP-4-dehydrorhamnose reductase (WP_003646252) | RmlD substrate binding domain (Pfam 04321); dTDP-4-dehydrorhamnose reductase RfbD (COG1091) | Lactobacillus plantarum | 95 |
| orf17 (233) | 22271–22972 | 2-C-methyl-d-erythritol 4-phosphate cytidylyltransferase (YP_003063113) | Glycosyltransferase family A (cl11394), UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase (TIGR01173); glucose-1-phosphate thymidylyltransferase, long form (TIGR01208) | Lactobacillus plantarum JDM1 | 100 |
| orf18 (341) | 22974–23999 | Ribitol-5-phosphate 2-dehydrogenase (YP_003063114) | Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family (cl16912); threonine dehydrogenase and related Zn-dependent dehydrogenases (COG1063) | Lactobacillus plantarum JDM1 | 100 |
a
The number of amino acids (aa) encoded.
b
The position from the beginning of the sequence of pCG1 plasmid (from the BamHI restriction site). nt, nucleotides.
c
Identification numbers are from databases from Pfam protein families, clusters of orthologous groups of proteins (COG), The Institute for Genomic Research (TIGR), and NCBI Conserved Domains Database.