TABLE 2.
DNA motifs recognized by zinc cluster proteins in S. cerevisiae
| Zinc cluster | Motif(s) (reference[s])a | Cross-regulation/autofeedback loop/ ChIP-chip binding (reference[s])b |
|---|---|---|
| Arg81p | TGACTCY (162) | Arg81p (92) |
| Aro80p | CCGNgRNTWRCCGMSAKTTGCCG (162) | Aro80p (92) |
| Cat8p | YCCNYTNRKCCG (221) | Ume6p (92) |
| Cep3p | Binds to the CDEIII element of centromeric DNA (63) | |
| Cha4p | tGCGAtgaR (162) | |
| Dal81p | GAAAATTGCGTTT (271), AAAAGCCGCGGGCGGGATT (162) | Uga3p (92) |
| Ecm22p | TCGTATA (274) | |
| Gal4p | CGG-N11-CCG (272) | |
| Hap1p | CGG-N6-CGG (294), CGG-N3-TANCGG-N3-TA (89) | Hap1p (92, 104) |
| Leu3p | CCGG-N2-CCGG (98), CCGGTMCCGG (162) | |
| Lys14p | TCCRNYGGA (16) | |
| Mal63p | MGC-N9-MGS (244) | |
| Oaf1p | CGG-N3-TNRN8-12CCG (223) | |
| Pdr1p | TCCGCGGA (120, 165) | |
| Pdr3p | TCCGCGGA (51, 98, 120, 165) | Pdr1p, Pdr3p (51, 92, 138) |
| Pdr8p | TCCG(A/T/C)GGA (100) | |
| Pip2p | CGG-N3-TNRN8-12CCG (223) | Oaf1p, Pip2p (223) |
| Ppr1p | TTCGG-N6-CCGAA (153) | |
| Put3p | CGG-N10-CCG (242), CGGGAAGCCM-N3-c (162) | Stb4p (92) |
| Rds1p | KCGGCCGa (92) | |
| Rgt1p | CGGANNA (123), SYCGGAAAAA (162) | |
| Sip4p | TCCATTSRTCCGR (221), CCRTYCRTCCG (276), CGGNYNAATGGRR (92) | Cat8p (276), Ume6p (92) |
| Stb4p | TCGg-N2-CGA (92) | Hal9p (92) |
| Stb5p | CGGNStTAta (92), CGGNSNTA (138) | Stb5p (92, 138) |
| Sut1p | CGCG (215), GCSGSG-N2-SG (92), gCSGgg (162) | Sut1p (92) |
| Tbs1p | Oaf1p, Pip2p (92) | |
| Tea1p | CGG-N10-CCG (86) | |
| Thi2p | GMAAcYNTWAgA (92), GMAACYSWWAGARCY (162) | |
| Uga3p | AAAARCCGCSGGCGGSAWT (255), CCGCSSGCGG (195), SGCGGNWttt (107) | |
| Ume6p | TCGGCGGCT (285), taGCCGCCSa (92) | Oaf1p, Pip2p, Cat8p, Sip4p (92) |
| Upc2p | TCGTATA (274) | Upc2p (2) |
| War1p | CGG-N23-CCG (131) | |
| Ydr520Cp | tCtCCGGCGga (162) | |
| Yjl103Cp | Ume6p (92) | |
| Yrr1p | WCCGYKKWW (144), TttTGTTACSCR (162) | Pdr1p, Pdr3p, Yrm1p, Yrr1p (158, 296) |
a
S = C or G, W = A or T, R = A or G, Y = C or T, K = G or T, M = A or C, N = A, C, G, or T. Lowercase letters indicate a weaker preference.
b
The P value cutoff for ChIP-chip data from reference 92 was 0.001.