Basic Information

Transcription Factor Domain

TF Family: zf-GAGA
Domain: zf-GAGA domain
PFAM: PF09237
TF Group: Zinc-Coordinating Group
Description: Members of this family bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence [1].
Hmmscan Out: # of c-Evalue i-Evalue score bias hmm coord from hmm coord to ali coord from ali coord to env coord from env coord to acc

1 6 0.087 5.2e+02 1.3 0.1 26 44 15 33 11 38 0.88

2 6 4.7e-05 0.28 11.7 0.2 20 45 37 62 27 65 0.83

3 6 0.00048 2.9 8.5 0.2 21 48 66 93 62 97 0.85

4 6 0.0029 17 6.0 0.1 21 45 94 118 90 121 0.87

5 6 0.00016 0.95 10.0 0.1 21 45 122 146 117 149 0.88

6 6 6.5e-05 0.38 11.3 0.4 21 52 150 181 146 183 0.89

#	of	c-Evalue	i-Evalue	score	bias	hmm coord from	hmm coord to	ali coord from	ali coord to	env coord from	env coord to	acc
1	6	0.087	5.2e+02	1.3	0.1	26	44	15	33	11	38	0.88
2	6	4.7e-05	0.28	11.7	0.2	20	45	37	62	27	65	0.83
3	6	0.00048	2.9	8.5	0.2	21	48	66	93	62	97	0.85
4	6	0.0029	17	6.0	0.1	21	45	94	118	90	121	0.87
5	6	0.00016	0.95	10.0	0.1	21	45	122	146	117	149	0.88
6	6	6.5e-05	0.38	11.3	0.4	21	52	150	181	146	183	0.89

Coding Sequence: ATGAATTCTAAAATTGATCCAAACAATTATAATGATGAACTTCAatgtaaaatatgtttaaagtattttaaaaataaaagtactTTAAAAAGGCACACTCGAGTTCATTCAAGTGAAAAACCTTTTGCATGCCATATATGTGGCAAAGCATTTACACAAAAACAAAGTTTAACTAGGCACATCCGAGTTCATTCGGGTGAATTACCTTTTGCATGTAAAATATGTGATACAGCGTTCACACAAAAACAATGTTTAACTAGGCACATTCGAGTTCATTCGGGTGAAAAACCTTTTGCATGTAAAATATGTGGTACAGCGTTCACACAAAAACAAAGTTTAACTAGGTACATTCGAGTTCATTCGGATGAAAAACCTTTTGCATGTAAAATATGTGATACAGCGTTCACACAAAAACAAAGTTTAACTAGGCACATTCGAGTTCATTCGGGTGAAAAACCTTTTGCATGTAAAATATGTGGTACAGCGTTCACACAACAACAAAGTTTAACTAGGCACATTCGAGTTCATTCTTGTGAAAAACCTTTTGCATataCAGTCAATCCTTTAGAAACAATTATAGAAAGTGCAATGGATGATGTTTTGAGTACTGAGCAAGCATTGAATGTATTAAAGGATGATTTATTGCTTGACGACACAACTGCACCTGTGCCATCGGTTGTGTCACTGGATTTACAGGCAAATGAACAATCATTTACCAACAGTTATGAACAATTGCCTAACCAAATGACTTCATCTTTAAATCATTTACACATTTCGAATAATTACGAGGCCATTTATGAATTGATTGAAGAATTTTTccaacaaaaattttaa
Protein Sequence: MNSKIDPNNYNDELQCKICLKYFKNKSTLKRHTRVHSSEKPFACHICGKAFTQKQSLTRHIRVHSGELPFACKICDTAFTQKQCLTRHIRVHSGEKPFACKICGTAFTQKQSLTRYIRVHSDEKPFACKICDTAFTQKQSLTRHIRVHSGEKPFACKICGTAFTQQQSLTRHIRVHSCEKPFAYTVNPLETIIESAMDDVLSTEQALNVLKDDLLLDDTTAPVPSVVSLDLQANEQSFTNSYEQLPNQMTSSLNHLHISNNYEAIYELIEEFFQQKF

Sequence clustering based on sequence similarity using MMseqs2