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 11 0.23 92 3.3 0.0 21 44 5 28 3 32 0.86

2 11 8.1e-05 0.032 14.4 0.1 21 51 33 63 29 66 0.85

3 11 5.7 2.2e+03 -1.1 0.1 23 33 63 73 57 76 0.80

4 11 1.1 4.2e+02 1.2 0.1 21 34 117 130 113 144 0.78

5 11 0.0034 1.4 9.2 0.1 21 46 145 170 137 176 0.82

6 11 0.0067 2.6 8.2 0.0 21 43 173 195 169 200 0.90

7 11 0.25 98 3.2 0.0 22 44 202 224 197 232 0.83

8 11 0.0012 0.45 10.7 0.0 21 43 229 251 221 256 0.87

9 11 0.052 20 5.4 0.0 21 43 257 279 254 288 0.86

10 11 0.68 2.7e+02 1.8 0.0 21 43 285 307 277 312 0.78

11 11 0.0016 0.64 10.2 0.0 21 46 313 338 305 341 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	11	0.23	92	3.3	0.0	21	44	5	28	3	32	0.86
2	11	8.1e-05	0.032	14.4	0.1	21	51	33	63	29	66	0.85
3	11	5.7	2.2e+03	-1.1	0.1	23	33	63	73	57	76	0.80
4	11	1.1	4.2e+02	1.2	0.1	21	34	117	130	113	144	0.78
5	11	0.0034	1.4	9.2	0.1	21	46	145	170	137	176	0.82
6	11	0.0067	2.6	8.2	0.0	21	43	173	195	169	200	0.90
7	11	0.25	98	3.2	0.0	22	44	202	224	197	232	0.83
8	11	0.0012	0.45	10.7	0.0	21	43	229	251	221	256	0.87
9	11	0.052	20	5.4	0.0	21	43	257	279	254	288	0.86
10	11	0.68	2.7e+02	1.8	0.0	21	43	285	307	277	312	0.78
11	11	0.0016	0.64	10.2	0.0	21	46	313	338	305	341	0.89

Coding Sequence: ATGATCCACACAGGAGAGAAGCCATATAAGTGTGACATCTGTGATGCCAAATTCACAACGTCAGGCACTTTGGTATCACACATAAGGACCCACACGGGAGAGAGGCCATATAAATGTGATATCTGTGATGCCTCATTCACCATGTCCAGCAATTTGAAGAGACATATCAGGACCCACACAGGAGTGAAGCCACATAAATGTGACATCTGCGATGCCAAGTTCACACAGTTAGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTACCTCATTCTCAACGTTATGTGGTTTGAAAGTACACATTAGGATCCACACAGGAGAGAAGCCATATAAGTGTGATATCTGTGATGCCAAATTCGCATTGTTAACCAATTTTTCAACACACTCAAGGATCCACACAGGAGAGAGGCCATATAAATGTGATATCTGTGATGCCTCATTCATCAGGCGTGAAAATTTGAAAAAACATATCAGGACCCACACAGGAGAGAAGCCGTATAAGTGTGACATCTGCGATGCCACGTTCGCTGTCTCAAGATCTTTGAAGGGACATAAAATGTCCCACATAAAAGAGAAGTCGTTTAAGTGTGAAATCTGCAATGCCATGTTCACACAGTTATCCCATTTGAAATCGCACAAAAGGACCCACACAGGAGAGAAGCCATATAAATGCAATGTCTGCAATGCCTCATTCGCCATTTCTGGCAATTTGAAGAGACATAGTATGATCCACACAGGAGAGAAGCCACATAAATGTGACATCTGTGATGCCTCATTCACACAGTTAGCCCATTTGAAAACGCACAATAGGACCCATACAGGAGAGAAGCCATATAAATGTGATATCTGTGATAGCAAATTCTCAACGTCAAGCATTTTGAAAGGACACACTAGGACCCACATTAACGAGAAGCCACATAAATGTGATTTCTGCTATGCCAAGTTTAAACATTTATTCAATTTAAATATGCACATTAAACTCCACACAGGAGAGAGTTCATTTTAA
Protein Sequence: MIHTGEKPYKCDICDAKFTTSGTLVSHIRTHTGERPYKCDICDASFTMSSNLKRHIRTHTGVKPHKCDICDAKFTQLVXXXXXXXXXXXXXXXXXXXXXTSFSTLCGLKVHIRIHTGEKPYKCDICDAKFALLTNFSTHSRIHTGERPYKCDICDASFIRRENLKKHIRTHTGEKPYKCDICDATFAVSRSLKGHKMSHIKEKSFKCEICNAMFTQLSHLKSHKRTHTGEKPYKCNVCNASFAISGNLKRHSMIHTGEKPHKCDICDASFTQLAHLKTHNRTHTGEKPYKCDICDSKFSTSSILKGHTRTHINEKPHKCDFCYAKFKHLFNLNMHIKLHTGESSF

Sequence clustering based on sequence similarity using MMseqs2