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 8 0.0077 3 8.0 0.0 21 45 8 32 4 36 0.90

2 8 0.046 18 5.6 0.0 22 45 37 60 32 64 0.90

3 8 3.2e-05 0.012 15.7 0.1 20 46 63 89 56 95 0.81

4 8 0.2 80 3.5 0.0 21 45 92 116 88 119 0.88

5 8 0.012 4.7 7.4 0.0 21 44 120 143 116 147 0.90

6 8 0.0059 2.3 8.4 0.0 21 44 148 171 144 175 0.90

7 8 0.00056 0.22 11.7 0.0 21 44 176 199 172 203 0.91

8 8 0.0038 1.5 9.0 0.0 21 46 204 229 200 234 0.85

#	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	8	0.0077	3	8.0	0.0	21	45	8	32	4	36	0.90
2	8	0.046	18	5.6	0.0	22	45	37	60	32	64	0.90
3	8	3.2e-05	0.012	15.7	0.1	20	46	63	89	56	95	0.81
4	8	0.2	80	3.5	0.0	21	45	92	116	88	119	0.88
5	8	0.012	4.7	7.4	0.0	21	44	120	143	116	147	0.90
6	8	0.0059	2.3	8.4	0.0	21	44	148	171	144	175	0.90
7	8	0.00056	0.22	11.7	0.0	21	44	176	199	172	203	0.91
8	8	0.0038	1.5	9.0	0.0	21	46	204	229	200	234	0.85

Coding Sequence: ATGCATATTAGAACCCACACAGGAGAAAAGCCATTTAAATGCGATACATGCGATGCCACTTTCTCGCAGTCGGGCCATTTGAAACATCATATCAAGACACATTTGGGAGAAAAGCCATTCAAATGTGAAGTCTGCGATGCCACATTTACCGATTCAAGCAGTTTAAAACCACATTTTAGGATCCACACAGGAGAGAAGCCTTATAAATGTGAAATCTGTGATGCAACGTTCGCACAGTCATACAGTTTAAAAAGACATGTCAGGACCCACACGGGAGAAAAGCCATTCAAATGTGATTTCTGCAGTGCCACATTTGCTCACTCGGGCGGTTTGAAAATTCATATTAAGACCCATACAGGAGAGAAGCCATTTAAATGTCATATCTGCGATGACGCATTCTCGCAGTCAGGCAGTTTGAAAAATCATATCAGGACCCACACAGGAGAGAAGCCATTCAAATGTGATTTCTGCGATGCCGCATTTTCTCATTCGCGCAGTTTGAAAAGTCACATTATGACCCATACAGGAGAGAAGCCATTTAAATGTCATATCTGCGATGCCACATTCACCGATTCAAGCAATTTGAATAAACATATTAGGACCCACTCGGGAGAAAAGCCATTCAAATGTGATGACTGTAATGCCACATTTACGCAATCGTACAGTTTGAAAAAACATATTATCAGAACTCACACAAAAGAAAAGACATAA
Protein Sequence: MHIRTHTGEKPFKCDTCDATFSQSGHLKHHIKTHLGEKPFKCEVCDATFTDSSSLKPHFRIHTGEKPYKCEICDATFAQSYSLKRHVRTHTGEKPFKCDFCSATFAHSGGLKIHIKTHTGEKPFKCHICDDAFSQSGSLKNHIRTHTGEKPFKCDFCDAAFSHSRSLKSHIMTHTGEKPFKCHICDATFTDSSNLNKHIRTHSGEKPFKCDDCNATFTQSYSLKKHIIRTHTKEKT

Sequence clustering based on sequence similarity using MMseqs2