TABLE 4.
Predicted biosynthetic abilities and auxotrophies of H. pylori
| Category and Compound | No. of genes presenta | Predicted synthetic abilityb |
|---|---|---|
| Amino acids | ||
| Aspartic acid | 2 (2) | Y |
| Cysteine | 2 (3)c | Y |
| Glutamic acid | 1 (1) | Y |
| Glutamine | 1 (1) | Y |
| Glycine | 1 (1) | Y |
| Lysine | 6 (7)d | Y |
| Threonine | 5 (5) | Y |
| Tryptophan | 5 (5) | Y |
| Alanine | 1 (2) | N |
| Arginine | 0 (9) | N |
| Histidine | 0 (8) | N |
| Isoleucine | 2 (9) | N |
| Leucine | 1 (6) | N |
| Methionine | 1 (7) | N |
| Phenylalanine | 1 (3) | N |
| Proline | 1 (3) | N |
| Valine | 2 (9) | N |
| Asparagine | 0 (2)e | ? |
| Serine | 2 (3) | ? |
| Tyrosine | 1 (3) | ? |
| Cofactors and vitamins | ||
| Biotin | 4 (4) | Y |
| CoA | 0 (5)d | Y |
| Folate | 7 (10)d | Y |
| Molybdopterin | 8 (9)c | Y |
| Panothenate | 4 (4) | Y |
| Protoheme | 10 (10) | Y |
| Pyridine nucleotides | 3 (5)d | Y |
| Pyridoxial phosphate | 3 (?)d | Y |
| Riboflavin | 6 (7)c | Y |
| Thiamine | 3 (9)cd | Y |
| Thioredoxin | 2 (2) | Y |
| B12 | ||
| Glutathione | 0 (2) | N |
| Siroheme | 0 (1) | N |
| Ubiquinone | 3 (8) | ? |
| Menaquinone | 0 (6) | ?f |
| Polyamines | ||
| Agmatine | 1 (1) | Y |
| Putrescine | 1 (3) | N |
| Spermidine | 3 (5) | ?g |
| Pyrimidines | 11 (10)h | Y |
| Purines | 3 (10) | Ni |
a
Number of genes assigned in E. coli shown in parentheses. Data from reference 119.
b
Y, yes; N, no; ?, not clear.
c
H. pylori has a gene for each step in the biosynthetic pathway. The number of genes in E. coli is larger due to redundancy.
d
Not all genes in this pathway have been identified in E. coli.
e
Synthesis may occur via tRNA (see the text).
f
The presence of menaquinones in H. pylori has been demonstrated (see the text).
g
Spermidine synthesis may be mediated by NapC.
h
Two copies of pyrC were found in H. pylori.
i
Salvage pathway is present (see the text).