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 9 0.0081 3.2 8.0 0.0 21 44 5 28 3 32 0.91

2 9 5.7e-06 0.0022 18.1 0.1 21 51 33 63 28 66 0.85

3 9 0.6 2.4e+02 2.0 0.0 23 44 63 84 61 92 0.85

4 9 0.26 1e+02 3.2 0.0 19 48 87 116 81 120 0.83

5 9 0.079 31 4.8 0.0 21 44 117 140 113 149 0.88

6 9 1.1 4.2e+02 1.2 0.1 21 43 145 167 138 170 0.83

7 9 0.0042 1.6 8.9 0.0 13 44 165 196 161 201 0.90

8 9 0.0036 1.4 9.1 0.1 22 45 202 225 198 233 0.87

9 9 0.72 2.8e+02 1.7 0.0 21 44 229 252 224 256 0.76

#	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	9	0.0081	3.2	8.0	0.0	21	44	5	28	3	32	0.91
2	9	5.7e-06	0.0022	18.1	0.1	21	51	33	63	28	66	0.85
3	9	0.6	2.4e+02	2.0	0.0	23	44	63	84	61	92	0.85
4	9	0.26	1e+02	3.2	0.0	19	48	87	116	81	120	0.83
5	9	0.079	31	4.8	0.0	21	44	117	140	113	149	0.88
6	9	1.1	4.2e+02	1.2	0.1	21	43	145	167	138	170	0.83
7	9	0.0042	1.6	8.9	0.0	13	44	165	196	161	201	0.90
8	9	0.0036	1.4	9.1	0.1	22	45	202	225	198	233	0.87
9	9	0.72	2.8e+02	1.7	0.0	21	44	229	252	224	256	0.76

Coding Sequence: ATGATCCACACAGGAGAGAAGCCATATAAGTGTGACATCTGTGATGCCAAATTCTCAGATTCAAGCAAGTTGACAAGACACGCAAGGACCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCAATGGCTCATTCACCAGTTCTAGAAATTTGAGGAGACATGGTAAGGTCCACACAGGAGTGAAGCCATATCAATGTGACGTCTGCGATGCCACGTTCTCACAGTTAGAACATTTGAAAACGCATAATAGTACCCACACAGGAGAGAAGCCATATAAATGTGATTTCTGTGATACCGCATTCTCAGCGTCAAGCGGTTTGAAAGTACACATTAGGATCCACACAGGAGAGAAGCCATATAAGTGTGACTTCTGTGATGCCAAATTCACATCCTCAAGCAATTTGGCAACACACTCAAGAATCCACACTGGAGAGAGGCCATATAAATGTGATTTCTGTGATGCCTCATTCATGAGGGGTGAATGTTTGAAAAAACACAGGAGCACCCACACAGGAGACAAGCCATATAAGTGTGACATCTGCGATGCCGCGTTTGCCGTCTCAAGCTCTTTGAAGGGACATATTATGACCCACTTAAAAGAGAAGCCGTATAAATGTGATATCTGCGATGCCAACTTCACAACGTCAACCCGTTTGAAGAGACATAAAAGGACCCATTCTGGAGAGAAGCCACATAAATGTGATGTCTGCAATGTCTCATTCCTCAGGTTGGATCATTTGAAAAAACATATCAGGACCCACACAAACGTGACGCAGTGA
Protein Sequence: MIHTGEKPYKCDICDAKFSDSSKLTRHARTHTGEKPYKCDICNGSFTSSRNLRRHGKVHTGVKPYQCDVCDATFSQLEHLKTHNSTHTGEKPYKCDFCDTAFSASSGLKVHIRIHTGEKPYKCDFCDAKFTSSSNLATHSRIHTGERPYKCDFCDASFMRGECLKKHRSTHTGDKPYKCDICDAAFAVSSSLKGHIMTHLKEKPYKCDICDANFTTSTRLKRHKRTHSGEKPHKCDVCNVSFLRLDHLKKHIRTHTNVTQ

Sequence clustering based on sequence similarity using MMseqs2