Transcriptional regulation of protein complexes in yeast

Table 4 Regulatory patterns discovered in the protein complexes of the proteasome system

Pattern	TAP106	TAP126	TAP148	TAP151	TAP157	HMS126	HMS161	HMS220	HMS223
....GCCACC..	4.23	1.54	13.99	3.41	15.74	1.21	6.35	4.67	7.62
...TGCCAC...	3.08		11.72	1.14	12.26	0.56	4.3	3.34	6.25
..TTGNCAC...			10.61		9.56	1.11	2.47	2.56	3.43
..TTGNNACC..		0.27	8.68		9.86		2.96	2.44	1.68
...TGCNACC..	2.38		9.14	2.25	9.74		2.36	1.63	4.33
..TTGCCA....			6.3		5.46	0.21	2.62	1.45	1.55
.TTTGCC.....			5.62		4.82	0.22	2.84	3.1	0.71
.TTTNNNACC..			4.27		5.97		1.16	1.94	0.33
.....CCACCG.			2.03		2.68		0.51	0.46	1.49
.TTTNCCA....			2.13		1.84
....GCCNCCG.					0.78				1.26
.TTTNNCAC...			1.6		0.96
ATTNGCC.....			1.13		0.41
......CACCGG			0.86		0.05
GGTNNNNAAA			0.36		0.94
.GTGNNNAAA	2.77		0.82		0.22
.GGGTAA			1.44	0.95	1.27
CGGGTA.			0.68		0.05	0.61
AGGGCA			1,56		0.36
AATNNNNNNNNNNACC						0.75

Column 1 lists the predicted regulatory-sequence pattern. The patterns are aligned to indicate how individual patterns could be assembled. Distinct groups of patterns are separated by horizontal spaces. The complexes in which the pattern has been identified are listed in the top row. These complexes are denoted as in Figure 3 and the text. The listed values are the statistical significance (Sig), computed as the logarithm of the E-value. Patterns with Sig ≤ 0.5 are not listed. Those with Sig ≥ 2 or higher are highly significant. Rows corresponding to highly significant patterns identified in at least six complexes are in bold.

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