TABLE 2.
Identification of the relevant xylanolytic genes in the 15-kb genomic segment
| ORFa | Protein | COG no. | Function | E value(s)b | Similar protein, identification no. | % Identityc |
|---|---|---|---|---|---|---|
| yesN* | YesN | 4753 | Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain (signal transduction mechanisms) | 3e-51 | B. subtilis subsp. subtilis 168, GeneID 938764 | 40 (64/159) |
| yesM* | YesM | 2972 | Predicted signal transduction protein with a C-terminal ATPase domain (signal transduction mechanisms) | 1e-48 | B. subtilis subsp. subtilis 168, GeneID 936078 | 23 (138/592) |
| lplA* | UgpB | 1653 | ABC-type sugar transport system, periplasmic component (carbohydrate transport and metabolism) | 4e-10 | B. subtilis subsp. subtilis 168, GeneID 936079 | 25 (49/191) |
| lplB* | LplB | 4209 | ABC-type polysaccharide transport system, permease component (carbohydrate transport and metabolism) | 3e-92 | B. subtilis subsp. subtilis 168, GeneID 936088 | 39 (112/285) |
| ytcP* | UgpE | 0395 | ABC-type sugar transport system, permease component (carbohydrate transport and metabolism) | 9e-41 | B. subtilis subsp. subtilis 168, GeneID 938095 | 34 (102/294) |
| aguA | AguA | pfam03648 | Glycosyl hydrolase family 67; family of α-glucuronidase. | 0.0 | G. stearothermophilus T-6, α-glucuronidase chain A, gi:37926810 | 67 (422/680) |
| xynA2 | XynA2 | smart00633 | Endoxylanase, glycosyl hydrolase family 10 | 8e-90 | G. stearothermophilus, intracellular xylanase IXT6, gi:114054545 | 60 (199/327) |
| xynB* | XynB | pfam04616/3507 | Arabinofuranosidase glycohydrolase family 43/β-xylosidase. | 2e-74/8e-86 | G. stearothermophilus, intracellular xylanase IXT6, XynB, gi:114054567 | 32 (178/540) |
a
*, The gene name is assigned to that closest in homology found in B. subtilis subsp. subtilis 168.
b
Similarity to the functional protein family assignment as determined by CD SEARCH (National Center for Biotechnology Information).
c
The percent identity is the number of residues of the major portion of the query protein identical to those of the subject protein as determined by the BLAST program (National Center for Biotechnology Information).