Table 3.

The 20 most conserved eubacterial proteins by quartile similarity score for the diverse set of 28 bacteria from 11 phyla. Rank (Rk) is the protein's highest rank; Window gives a window size (or range) for which the protein achieves its highest rank; Score/Res (S/R) is the quartile score divided by the window size; Length (Len) is the number of amino acid residues for a representative bacterium; COG and Class (Cls) are from (7). Class J is translation, ribosomal structure and biogenesis; K is transcription; L is replication, recombination and repair; and O is post-translational modification, protein turnover, and chaperones.

Rk	Window	S/R	Gene	Cls	COG	Len	Name
1	60–90, 330–390	5.7	tufB	JE	0050	405	elongation factor TU
1	120	5.2	hflB	O	0465	618	cell division protein FtsH
1	150–300	4.7	rpoC	K	0086	1546	DNA-dir'd RNA polymerase, β′
1	420–480	4.0	uvrA	L	0178	1016	excinuclease ABC, subunit A
1	510	3.8	fusA	J	0480	698	elongation factor G
2	60	5.8	rpoB	K	0085	1179	DNA-dir'd RNA polymerase, β
2	420	4.0	groL	O	0459	548	Chaperonin GroEL (HSP60)
2	450	3.8	dnaK	O	0443	628	Hsp70 chaperone
3	330	4.2	atpD	C	0055	478	ATP synthase F1 β subunit
4	60–120	5.1	clpB	O	0542	875	ATP-dependent Clp protease
4	150	4.9	clpX	O	1219	403	ATP-dependent Clp protease
4	180	4.7	recA	L	0468	363	recombination protein
4	510	3.7	uvrB	L	0556	730	excinuclease ABC, subunit B
5	60	5.5	rpoD	K	0568	360	RNA polymerase σ-70 factor
6	60–90	5.2	rpsL	J	0048	131	ribosomal protein S12
6	510	3.5	lepA	N	0481	606	GTP-binding elongation factor
7	60	5.4	aspS	J	0173	577	aspartyl-tRNA synthetase
8	360	3.7	gyrA	L	0188	812	DNA gyrase, subunit A
9	450	3.4	atpA	C	0056	503	ATP synthase F1 α subunit
9	480–510	3.1	infB	J	0532	803	translation initiation factor IF-2