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

BMC Genomics

Table 2 Four-field EC number validation of EFICAz-predicted enzyme functions for 25 previously hypothetical proteins

Domain	Org.¹	Gene name²	PMID³	True EC number⁴	Predicted EC number⁵	EC field Agreement⁶
Eukarya	hsa	54995	16261191	2.3.1.41	2.3.1.41	4
Eukarya	hsa	84779	16638120	2.3.1.88	2.3.1.88	4
Bacteria	ana	alr3351	15695431	6.3.2.2	6.3.2.2	4
Archaea	ape	APE0768	14551194	5.3.1.9	5.3.1.9	4
Bacteria	eco	b0581	15211520	6.3.2.2	6.3.2.2	4
Bacteria	ecc	c0667	15211520	6.3.2.2	6.3.2.2	4
Bacteria	mle	ML1399	15500449	4.6.1.1	4.6.1.1	4
Bacteria	pae	PA1167	15136569	4.2.2.3	4.2.2.3	4
Eukarya	cel	R07B7.11	15676072	3.2.1.49/3.2.1.22	3.2.1.22	4
Bacteria	mtu	Rv1647	15500449	4.6.1.1	4.6.1.1	4
Bacteria	mtu	Rv1700	12906832	3.6.1.13	3.6.1.13	4
Bacteria	mtu	Rv1885c	15654876	5.4.99.5	5.4.99.5	4
Bacteria	mtu	Rv2747	15838030	2.3.1.1	2.3.1.1	4
Bacteria	sfx	S0496	15211520	6.3.2.2	6.3.2.2	4
Bacteria	sfl	SF0488	15211520	6.3.2.2	6.3.2.2	4
Bacteria	spt	SPA0821	15547259	2.5.1.17	2.5.1.17	4
Bacteria	spt	SPA2151	15211520	6.3.2.2	6.3.2.2	4
Bacteria	sty	STY2255	15547259	2.5.1.17	2.5.1.17	4
Bacteria	stt	t0824	15547259	2.5.1.17	2.5.1.17	4
Archaea	tac	Ta1434	15044458	2.5.1.17	2.5.1.17	4
Bacteria	ece	Z0720	15211520	6.3.2.2	6.3.2.2	4
Bacteria	ecc	c0735	16411753	3.2.2.8	3.2.2.1	3
Archaea	mja	MJ0044	16621811	2.7.4.-	2.7.2.8	2
Archaea	mja	MJ0936	15128743	3.1.4.-	3.6.1.10	1
Bacteria	mtu	Rv0805	16313172	3.1.4.17	3.6.1.10	1

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