High precision multi-genome scale reannotation of enzyme function by EFICAz

BMC Genomics

Table 3 Three-field EC number validation of enzyme functions predicted by EFICAz with four-field EC numbers for 12 previously hypothetical proteins

Domain	Org.¹	Gene name²	PMID³	True EC number⁴	Predicted EC number⁵	EC field Agreement⁶
Bacteria	ecc	c2186	16077126	1.1.1.-	1.1.1.2	≤ 3
Bacteria	ecc	c5454	15489502	3.1.3.-	3.1.3.48	≤ 3
Bacteria	lla	L124252	15901700	2.1.1.-	2.1.1.14	≤ 3
Bacteria	pae	PA1032	16461666	3.5.1.-	3.5.1.11	≤ 3
Bacteria	sfx	S0029	11027694	3.2.2.-	3.2.2.1	≤ 3
Bacteria	sfl	SF0027	11027694	3.2.2.-	3.2.2.1	≤ 3
Bacteria	spt	SPA2330	15157072	2.7.1.-	2.7.1.2	≤ 3
Bacteria	spt	SPA4373	15489502	3.1.3.-	3.1.3.48	≤ 3
Bacteria	sty	STY0426	15157072	2.7.1.-	2.7.1.2	≤ 3
Bacteria	stt	t2471	15157072	2.7.1.-	2.7.1.2	≤ 3
Bacteria	ece	Z0035	11027694	3.2.2.-	3.2.2.1	≤ 3
Bacteria	ece	Z0493	15157072	2.7.1.-	2.7.1.2	≤ 3

¹ The species names corresponding to the KEGG three letter codes are listed in the footnote of Table 1.
² Gene name from the Genes database of KEGG.
³ PMID: PubMed Unique Identifier, the journal citation accession number for the most relevant record in PubMed supporting the experimentally-derived annotation [65].
⁴ Experimentally-derived EC numbers.
⁵ EFICAz-predicted EC numbers.
⁶ Number of matching first n fields of the experimentally-derived and EFICAz-predicted EC numbers, with n = 1 to 4.

ISSN: 1471-2164