Table 3

Presence of Glycine, Serine, and Threonine subsystems in the AMD, SEED, and Sargasso databases. The table is a subset of the data from the supplemental data [see 3].

No¹

Name²

K³

Classification⁴

# AMD⁵

# SEED⁶

# SS⁷

AMD per million⁸

SEED per million⁹

SS per million¹⁰

Prev.¹¹

206

Glycine synthesis

A

Amino

Acids

Alanine, serine,

and glycine

7

24

34

923

19

35

Sargasso

207

Glycine synthesis

B

2

492

483

264

390

503

Sargasso

426

Serine biosynthesis

A

13

166

244

1713

132

254

Sargasso

427

Serine biosynthesis

B

7

1545

1257

923

1224

1309

Sargasso

475

Threonine synthesis

B

K, T, M, and C

8

1070

952

1054

848

991

Sargasso

¹Subsystem number

²Subsystem name as designated by the curator

³K: Kingdom (A: Archaea; B: Bacteria; E: Eukaryota)

⁴Classification of the subsystem. K, T, M, and C: Lysine, threonine, methionine and cysteine.

⁵Number of proteins present in the AMD sample

⁶Number of proteins present in the SEED sample

⁷Number of proteins present in the Sargasso Sea sample (SS).

^8–10Number of proteins present in the AMD, SEED, and Sargasso samples normalized per million proteins in each sample.

¹¹Statistically significant prevalence. Prev.: prevalence.

Rodriguez-Brito et al. BMC Bioinformatics 2006 7:162   doi:10.1186/1471-2105-7-162