Transcription Factor

Accessions: T000661_1.02 (CISBP 1.02), Q9SUK8 (JASPAR 2024), T19925 (AthalianaCistrome v4_May2016)
Names: AT4G16750, T000661_1.02;, ERF39_ARATH, T19925;
Organisms: Arabidopsis thaliana
Libraries: CISBP 1.02 1, JASPAR 2024 2, AthalianaCistrome v4_May2016 3
1 Weirauch MT, Yang A, Albu M, Cote AG, Montenegro-Montero A, Drewe P, Najafabadi HS, Lambert SA, Mann I, Cook K, Zheng H, Goity A, van Bakel H, Lozano JC, Galli M, Lewsey MG, Huang E, Mukherjee T, Chen X, Reece-Hoyes JS, Govindarajan S, Shaulsky G, et al. Determination and inference of eukaryotic transcription factor sequence specificity. Cell. 2014 Sep 11;158(6):1431-43. doi: 10.1016/j.cell.2014.08.009. [Pubmed]
2 Rauluseviciute I, Riudavets-Puig R, Blanc-Mathieu R, Castro-Mondragon JA, Ferenc K, Kumar V, Lemma RB, Lucas J, Cheneby J, Baranasic D, Khan A, Fornes O, Gundersen S, Johansen M, Hovig E, Lenhard B, Sandelin A, Wasserman WW, Parcy F, Mathelier A. JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles. Nucleic Acids Res : (2023). [Pubmed]
3 O'Malley RC, Huang SS, Song L, Lewsey MG, Bartlett A, Nery JR, Galli M, Gallavotti A, Ecker JR. Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape. Cell 165:1280-92 (2016). [Pubmed]
Notes: experiment type:PBM, family:AP2, ecotype:Col-0, experiment type: ampDAP-seq, experiment type: ampDAP-seq (methyl-cytosines removed by PCR), experiment type: DAP-seq, family:AP2-EREBP
Length: 179
Pfam Domains: 39-88 AP2 domain
Sequence:
(in bold interface residues)
1 MQDSSSHESQRNLRSPVPEKTGKSSKTKNEQKGVSKQPNFRGVRMRQWGKWVSEIREPRK 60
61 KSRIWLGTFSTPEMAARAHDVAALAIKGGSAHLNFPELAYHLPRPASADPKDIQEAAAAA 120
121 AAVDWKAPESPSSTVTSSPVADDAFSDLPDLLLDVNDHNKNDGFWDSFPYEDPFFLENY
Interface Residues: 37, 38, 44, 46, 48, 52, 54, 56, 61, 63, 65
3D-footprint Homologues: 7et4_D, 5wx9_A, 7wq5_A, 1gcc_A
Binding Motifs: M0026_1.02 rtGtCGGygr
MA0995.1 rtGtCGGygr
M0015 / MA1237.1 cdycdyCrCCGaCrm
M0132 wkTGTCGGTGgmrdwdr
MA0995.2 ycrCCGACAmh
MA0995.3 rCCGACA
Binding Sites: MA1237.1.1
MA1237.1.10
MA1237.1.11
MA1237.1.12
MA1237.1.13
MA1237.1.14
MA1237.1.15
MA1237.1.16
MA1237.1.17
MA1237.1.18
MA1237.1.19
MA1237.1.2
MA1237.1.20
MA1237.1.3
MA1237.1.4
MA1237.1.5
MA1237.1.6
MA1237.1.7
MA1237.1.8
MA1237.1.9
MA0995.2.1
MA0995.2.10
MA0995.2.11
MA0995.2.12
MA0995.2.13
MA0995.2.14
MA0995.2.15
MA0995.2.16 / MA0995.2.9
MA0995.2.17
MA0995.2.18
MA0995.2.19
MA0995.2.2
MA0995.2.20
MA0995.2.3
MA0995.2.4
MA0995.2.5
MA0995.2.6
MA0995.2.7
MA0995.2.8
MA0995.3.14
MA0995.3.11 / MA0995.3.18 / MA0995.3.19 / MA0995.3.2 / MA0995.3.5
MA0995.3.10 / MA0995.3.13 / MA0995.3.16 / MA0995.3.17 / MA0995.3.8 / MA0995.3.9
MA0995.3.1
MA0995.3.12 / MA0995.3.20 / MA0995.3.4 / MA0995.3.6
MA0995.3.15
MA0995.3.3
MA0995.3.7
Publications: Hao D., Ohme-Takagi M., Sarai A. Unique mode of GCC box recognition by the DNA-binding domain of ethylene-responsive element-binding factor (ERF domain) in plant. J. Biol. Chem. 273:26857-26861 (1998). [Pubmed]

Magnani E, Sjölander K, Hake S. From endonucleases to transcription factors: evolution of the AP2 DNA binding domain in plants. Plant Cell 16:2265-77 (2004). [Pubmed]
Related annotations: PaperBLAST

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These data are available AS IS and at your own risk. The EEAD/CSIC do not give any representation or warranty nor assume any liability or responsibility for the data nor the results posted (whether as to their accuracy, completeness, quality or otherwise). Access to these data is available free of charge for ordinary use in the course of research. Downloaded data have CC-BY-NC-SA license. FootprintDB is also available at RSAT::Plants, part of the INB/ELIXIR-ES resources portfolio.