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 10 0.006 2.3 8.4 0.0 22 48 9 35 5 39 0.83

2 10 0.017 6.6 7.0 0.0 21 45 36 60 32 67 0.87

3 10 0.037 15 5.9 0.0 21 44 64 87 60 91 0.89

4 10 0.0062 2.4 8.3 0.0 21 48 92 118 88 120 0.89

5 10 0.00044 0.17 12.0 0.0 18 46 117 145 116 153 0.85

6 10 0.3 1.2e+02 2.9 0.1 22 44 149 171 144 175 0.88

7 10 2.2e-06 0.00088 19.4 0.0 10 46 164 201 162 207 0.81

8 10 0.012 4.7 7.4 0.1 21 44 204 227 200 231 0.90

9 10 0.00041 0.16 12.1 0.0 21 45 232 256 228 263 0.88

10 10 9.7e-05 0.038 14.1 0.1 21 45 260 284 255 288 0.87

#	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	10	0.006	2.3	8.4	0.0	22	48	9	35	5	39	0.83
2	10	0.017	6.6	7.0	0.0	21	45	36	60	32	67	0.87
3	10	0.037	15	5.9	0.0	21	44	64	87	60	91	0.89
4	10	0.0062	2.4	8.3	0.0	21	48	92	118	88	120	0.89
5	10	0.00044	0.17	12.0	0.0	18	46	117	145	116	153	0.85
6	10	0.3	1.2e+02	2.9	0.1	22	44	149	171	144	175	0.88
7	10	2.2e-06	0.00088	19.4	0.0	10	46	164	201	162	207	0.81
8	10	0.012	4.7	7.4	0.1	21	44	204	227	200	231	0.90
9	10	0.00041	0.16	12.1	0.0	21	45	232	256	228	263	0.88
10	10	9.7e-05	0.038	14.1	0.1	21	45	260	284	255	288	0.87

Coding Sequence: ATGCATATCAAGACCCACACAGGAGAGAAGTCATTCAAATGTGATATCTGCGATACAATGTTCACACATCCAAGCAATTTGAAACGACATCTTAGGACACACACGAATGAAAAGCCATTTAAATGTGATATGTGTGATTCCACATTTGCACAGTCTGATCATTTAAAAAGTCATATGAAGAGCCACACTGGAGAAAAGCCCTATGAATGTCATATCTGTGATGACAAGTTCAAGCGGGCAAGCAATTTGAAAATGCATATCCGAACCCACACTGGAGAGAAGCCGTTTAAATGTGATACCTGCGATGCCACTTTCTCGCAGTCAGGCCATTACAAGCGTCATATTATAAGGCATACAGGAGAGAAGCCATTTAAATGCGATATATGCGATGCCACATTTACCCAGTCGGGAAGTTTGAAAATGCATATGCGAACTCACACTGGAGATAAGCCATATAAATGTGTCATCTGCGATACCACATTCACCGAGCCAGGCAGTTTGAAAAGGCATATTAGGACCCACACAGGAGAAAAGCCATTCAAATGTGATATCTGCAATGCCATGTTTAAGCAATCAAGCAATTTAAAGTTACATATGCGAACTCACACTGGAGAAAAGCCTTATAAATGTGAAATATGCCATTCCATGTTTACGCGGTCATCCCATTTAAAATCACACGTTATGACCCACACTGGAGAAAAGCCATATAAATGCGAAATCTGCGATGCCACATTCACGCAGATCAGCAATTTGAAAAAACATGTAAGGTCTCATACTGGAGAAAAGCCATTTAAATGTGATATCTGCGATGCCACATTTACGCAGTCTAGCCATTGCAAACGTCATCTTAAGACCCATACAGCAGAGTAA
Protein Sequence: MHIKTHTGEKSFKCDICDTMFTHPSNLKRHLRTHTNEKPFKCDMCDSTFAQSDHLKSHMKSHTGEKPYECHICDDKFKRASNLKMHIRTHTGEKPFKCDTCDATFSQSGHYKRHIIRHTGEKPFKCDICDATFTQSGSLKMHMRTHTGDKPYKCVICDTTFTEPGSLKRHIRTHTGEKPFKCDICNAMFKQSSNLKLHMRTHTGEKPYKCEICHSMFTRSSHLKSHVMTHTGEKPYKCEICDATFTQISNLKKHVRSHTGEKPFKCDICDATFTQSSHCKRHLKTHTAE

Sequence clustering based on sequence similarity using MMseqs2