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 0.066 3e+03 2.4 0.0 26 46 11 31 8 37 0.89

2 11 0.004 1.8e+02 6.3 0.0 27 46 40 59 36 65 0.90

3 11 0.0013 58 7.9 0.1 27 46 68 87 61 93 0.89

4 11 0.28 1.3e+04 0.4 0.0 26 46 95 115 91 121 0.87

5 11 0.067 3.1e+03 2.4 0.0 27 46 124 143 116 149 0.88

6 11 0.4 1.8e+04 -0.1 0.0 27 45 152 170 144 178 0.87

7 11 0.8 3.7e+04 -1.0 0.0 26 46 179 199 166 206 0.87

8 11 0.0036 1.6e+02 6.5 0.1 26 46 207 227 200 234 0.89

9 11 0.0088 4e+02 5.2 0.0 26 46 235 255 229 262 0.88

10 11 0.19 8.7e+03 1.0 0.0 27 46 264 283 260 289 0.87

11 11 0.033 1.5e+03 3.4 0.1 27 45 292 310 288 313 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	0.066	3e+03	2.4	0.0	26	46	11	31	8	37	0.89
2	11	0.004	1.8e+02	6.3	0.0	27	46	40	59	36	65	0.90
3	11	0.0013	58	7.9	0.1	27	46	68	87	61	93	0.89
4	11	0.28	1.3e+04	0.4	0.0	26	46	95	115	91	121	0.87
5	11	0.067	3.1e+03	2.4	0.0	27	46	124	143	116	149	0.88
6	11	0.4	1.8e+04	-0.1	0.0	27	45	152	170	144	178	0.87
7	11	0.8	3.7e+04	-1.0	0.0	26	46	179	199	166	206	0.87
8	11	0.0036	1.6e+02	6.5	0.1	26	46	207	227	200	234	0.89
9	11	0.0088	4e+02	5.2	0.0	26	46	235	255	229	262	0.88
10	11	0.19	8.7e+03	1.0	0.0	27	46	264	283	260	289	0.87
11	11	0.033	1.5e+03	3.4	0.1	27	45	292	310	288	313	0.89

Coding Sequence: ATGCAAATCCACAGCGGAATTAAAAAATATCAGTGCGATGTGTGTCATAAGACCTTCAACCAGTCATCTAGTTTGTCAGGACATATGCAAATCCACAGCGGAATTAAAAAATATGAGTGTGATGTGTGTCATAAGACCTTCACCCAGTCATCTAGTTTGTCACGACATATGCAAATCCACAGTGGAATTAAAAAGTACGAGTGTGATGTGTGTCATAAAACCTTCACCATGTCACGTAATTTGTCACGGCATAAACAAATCCACAATGGTATTAAAAGGTATAAGTGTGATGTGTGTCTGAAAACCTTCACCCAGTCATCGTATTTGTCACAGCATAAACAAATCCACAATGGAATTAAAAAGTTTGAGTGTGATGTGTGTCATAAAACCTTCAACCAGAAATCTAATTTGTCACAGCACAAACAAATCCACAGTGGAATTAAAAAGTATGAGTGTGATGTGTGTCTAAAAACCTTCACCCTGTCATCTAATTTGTCACAACATAAACAAATCCACAGTGGAATTAAAATGTATAAGTGTGATGTATGTCAGAAAACGTTTACCCGGTCAGCTGAATTGTCAGCACATATGCAAATCCACAGCGGAATTAAAAAGTATGAGTGTGATGTATGTCATAAGACCTTCACCCAGTCATCTAGTTTGTCACGACATATGCAAATCCACAGTGAAATTAAAAAGTACAAGTGTGATGTGTGTCATGAAACCTTCACCATGTCACGTAATTTGTCACAGCATAAACAAATCCACAATGGTATTAAAAGGTATAAGTGCGATGTATGTCAGAAAACATTTACCCGGTCATCTGATTTGTCACGACATAAACAAATCCACAGTGGAATTAAAAAGTACGAGTGTGATGTGTGTCATAAAACCTTCACCCAGTCACCTCATTTGTCACGGCATAAACAAATCCACAATGGAATTTAA
Protein Sequence: MQIHSGIKKYQCDVCHKTFNQSSSLSGHMQIHSGIKKYECDVCHKTFTQSSSLSRHMQIHSGIKKYECDVCHKTFTMSRNLSRHKQIHNGIKRYKCDVCLKTFTQSSYLSQHKQIHNGIKKFECDVCHKTFNQKSNLSQHKQIHSGIKKYECDVCLKTFTLSSNLSQHKQIHSGIKMYKCDVCQKTFTRSAELSAHMQIHSGIKKYECDVCHKTFTQSSSLSRHMQIHSEIKKYKCDVCHETFTMSRNLSQHKQIHNGIKRYKCDVCQKTFTRSSDLSRHKQIHSGIKKYECDVCHKTFTQSPHLSRHKQIHNGI

Sequence clustering based on sequence similarity using MMseqs2