Transcription Factor

Accessions: USF1 (HT-SELEX2 May2017), USF1_HUMAN (HOCOMOCO 10), P22415 (JASPAR 2024)
Names: ENSG00000158773, USF1, bHLHb11, Class B basic helix-loop-helix protein 11, Major late transcription factor 1, Upstream stimulatory factor 1, USF1_HUMAN
Organisms: Homo sapiens
Libraries: HT-SELEX2 May2017 1, HOCOMOCO 10 2, JASPAR 2024 3
1 Yin Y, Morgunova E, Jolma A, Kaasinen E, Sahu B, Khund-Sayeed S, Das PK, Kivioja T, Dave K, Zhong F, Nitta KR, Taipale M, Popov A, Ginno PA, Domcke S, Yan J, Schübeler D, Vinson C, Taipale J. Impact of cytosine methylation on DNA binding specificities of human transcription factors. Science : (2017). [Pubmed]
2 Kulakovskiy IV, Vorontsov IE, Yevshin IS, Soboleva AV, Kasianov AS, Ashoor H, Ba-Alawi W, Bajic VB, Medvedeva YA, Kolpakov FA, Makeev VJ. HOCOMOCO: expansion and enhancement of the collection of transcription factor binding sites models. Nucleic Acids Res : (2016). [Pubmed]
3 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]
Notes: TF family: bHLH experiment: HT-SELEX Hamming distance: 1 cycle: 3, TF family: bHLH experiment: Methyl-HT-SELEX Hamming distance: 1 cycle: 3
Length: 310
Pfam Domains: 200-254 Helix-loop-helix DNA-binding domain
Sequence:
(in bold interface residues)
1 MKGQQKTAETEEGTVQIQEGAVATGEDPTSVAIASIQSAATFPDPNVKYVFRTENGGQVM 60
61 YRVIQVSEGQLDGQTEGTGAISGYPATQSMTQAVIQGAFTSDDAVDTEGTAAETHYTYFP 120
121 STAVGDGAGGTTSGSTAAVVTTQGSEALLGQATPPGTGQFFVMMSPQEVLQGGSQRSIAP 180
181 RTHPYSPKSEAPRTTRDEKRRAQHNEVERRRRDKINNWIVQLSKIIPDCSMESTKSGQSK 240
241 GGILSKACDYIQELRQSNHRLSEELQGLDQLQLDNDVLRQQVEDLKNKNLLLRAQLRHHG 300
301 LEVVIKNDSN
Interface Residues: 201, 203, 204, 205, 207, 208, 211, 212, 216, 238, 240
3D-footprint Homologues: 1a0a_B, 1an4_A, 7xi3_A, 5v0l_A, 7rcu_E, 5gnj_I, 6g1l_A, 4h10_A, 7ssa_L, 5i50_B, 1am9_A, 7xq5_A, 7d8t_A, 4zpk_A, 5nj8_D, 7f2f_B, 5eyo_A, 2ypa_B, 8osl_P, 7xhv_B, 7xi3_B
Binding Motifs: MA0093.2 ryCAyGTGACc
USF1_2 cmCACGTGaCm
USF1_methyl_1 acCAyGTGAYc
USF1_HUMAN.H10MO.A|M01591 gGTCACGTGr
MA0093.1 CACGTGr
MA0093.3 drGTCATGTGACyh
MA0093.4 GTCATGTGAC
Binding Sites: MA0093.1.1 / MA0093.1.8
MA0093.1.10
MA0093.1.11
MA0093.1.12 / MA0093.1.5 / MA0093.1.9
MA0093.1.13
MA0093.1.14
MA0093.1.15
MA0093.1.16
MA0093.1.17
MA0093.1.18
MA0093.1.19
MA0093.1.2
MA0093.1.20
MA0093.1.3
MA0093.1.4
MA0093.1.6
MA0093.1.7
MA0093.2.1
MA0093.2.10
MA0093.2.11
MA0093.2.12
MA0093.2.13
MA0093.2.14
MA0093.2.15
MA0093.2.16
MA0093.2.17
MA0093.2.18
MA0093.2.19
MA0093.2.2
MA0093.2.20
MA0093.2.3
MA0093.2.4
MA0093.2.5
MA0093.2.6
MA0093.2.7
MA0093.2.8
MA0093.2.9
MA0093.3.1
MA0093.3.10
MA0093.3.11
MA0093.3.12
MA0093.3.13 / MA0093.3.3
MA0093.3.14 / MA0093.3.4
MA0093.3.15
MA0093.3.16 / MA0093.3.5
MA0093.3.17
MA0093.3.18
MA0093.3.19
MA0093.3.2
MA0093.3.20
MA0093.3.1 / MA0093.3.3
MA0093.3.4
MA0093.3.5
MA0093.3.6
MA0093.3.2 / MA0093.3.7
MA0093.3.8
MA0093.3.9
MA0093.3.9
MA0093.3.10
MA0093.3.11
MA0093.3.12
MA0093.3.13
MA0093.3.14
MA0093.3.15
MA0093.3.16
MA0093.3.17
MA0093.3.18
MA0093.3.19
MA0093.3.20
MA0093.3.6
MA0093.3.7
MA0093.3.8
MA0093.4.1 / MA0093.4.9
MA0093.4.10 / MA0093.4.2
MA0093.4.11
MA0093.4.12 / MA0093.4.13
MA0093.4.14 / MA0093.4.7
MA0093.4.15 / MA0093.4.6
MA0093.4.16
MA0093.4.17
MA0093.4.18
MA0093.4.19
MA0093.4.20
MA0093.4.3
MA0093.4.4
MA0093.4.5
MA0093.4.8
Publications: Bendall A. J., Molloy P. L. Base preference for DNA binding by the bHLH-Zip protein USF: effects of magnesiumchloride on specificity and comparison with binding of Myc family members. Nucleic Acids Res. 22:2801-2810 (1994). [Pubmed]

Jolma A, Yan J, Whitington T, Toivonen J, Nitta KR, Rastas P, Morgunova E, Enge M, Taipale M, Wei G, Palin K, Vaquerizas JM, Vincentelli R, Luscombe NM, Hughes TR, Lemaire P, Ukkonen E, Kivioja T, Taipale J. DNA-Binding Specificities of Human Transcription Factors. Cell. 2013 Jan 17;152(1-2):327-39. [Pubmed]
Related annotations: PaperBLAST

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