Transcription Factor
| Accessions: | T018416_1.02 (CISBP 1.02), UP00356A (UniPROBE 20160601), P38165 (JASPAR 2024) |
| Names: | RTG3, T018416_1.02;, Retrograde regulation protein 3, YBL0810, YBL103C, RTG3_YEAST |
| Organisms: | Saccharomyces cerevisiae |
| Libraries: | CISBP 1.02 1, UniPROBE 20160601 2, JASPAR 2024 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 Hume MA, Barrera LA, Gisselbrecht SS, Bulyk ML. UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein-DNA interactions. Nucleic Acids Res : (2015). [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] |
| Description: | Basic helix-loop-helix-leucine zipper (bHLH/Zip) transcription factor that forms a complex with another bHLH/Zip protein, Rtg1p, to activate the retrograde (RTG) and TOR pathways |
| Notes: | experiment type:PBM, family:bHLH |
| Length: | 486 |
| Pfam Domains: | 286-344 Helix-loop-helix DNA-binding domain |
| Sequence: (in bold interface residues) | 1 MMNNNESEAENQRLLDELMNQTKVLQETLDFSLVTPTPHHNDDYKIHGSAYPGGETPAQQ 60 61 HEKLSYINTHNSNDNNNLMGSQARSNSQTPTASTIYEEAESQSSYLDDMFRTSQGGRPVT 120 121 QNSISSIGQGPLRSSYSMAYDSPVDRAMNTPLQQQEGLKAELPHDFLFQHGTDDTMYNLT 180 181 DDLSSSLSSSINSDMMTPNTYSSSFSYNPQSLGPASVSSTYSPKVRSPSSSFRAGSFLSS 240 241 SFRHGSINTPRTRHTSISSNMTENIGPGSVPKILGGLTSDEKLRRKREFHNAVERRRREL 300 301 IKQKIKELGQLVPPSLLNYDDLGKQIKPNKGIILDRTVEYLQYLAEILEIQARKKKALLA 360 361 KIKELEEKKSSVAALSPFTNNHHASSGQNNSENSEERIIDIRSVPNALMNEQNSKAELHN 420 421 WEPPLYDSVGNHNHAGTMESHPHTNIHEELKEFLSGDLIEAEDNAKLMFGDDNSNPADYL 480 481 LEFGSG |
| Interface Residues: | 287, 289, 290, 291, 293, 294, 297, 298, 324, 330 |
| 3D-footprint Homologues: | 1a0a_B, 1an4_A, 8osl_O, 5v0l_A, 7rcu_E, 5eyo_A, 6g1l_A, 4h10_A, 7ssa_L, 5i50_B, 1am9_A, 7d8t_A, 4h10_B, 7xi3_A, 5nj8_D, 7f2f_B, 4zpk_A, 2er8_C, 8osl_P |
| Binding Motifs: | UP00356A_1 rkmkkakCACGTGmyyrvwc MA0376.1 rkmkkakCACGTGmyyrvwc M0241_1.02 akCACGTGAytt MA0376.2 kCACGTGm |
| Binding Sites: | AGCACGTG ATATTAAA ATCACGTG ATTTAATA ATTTTTTC CACGTGAC CACGTGCC CTCCCCCC GCACGTGA GCACGTGC GGAAAAAA GGGGGAAA GGGGGAGA TCACGTGA TCCCCCAA AAATGATA AAATTAAA AATTCAAA ATCATGAT CGCGTGAC |
| Publications: | *Zhu C, *Byers K, *McCord RP, Shi Z, Berger MF, Newburger D, Saulrieta K, Smith Z, Shah M, Radhakrishnan M, Philippakis AA, Hu Y, De Masi F, Pacek M, Rolfs A , Murthy TVS, LaBaer J, Bulyk ML. High-Resolution DNA Binding Specificity Analysis of Yeast Transcription Factors. Genome Research. Epub January 21, 2009, doi:10.1101/gr.090233.108 (*co-1st authors). [Pubmed] Newburger D.E, Bulyk M.L. UniPROBE: an online database of protein binding microarray data on protein-DNA interactions. Nucleic acids research 37:D77-82 (2009). [Pubmed] |
| Related annotations: | PaperBLAST |
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