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 0.014 6.3e+02 4.6 0.0 26 46 76 96 68 102 0.87

2 10 0.02 9e+02 4.1 0.0 27 46 105 124 100 130 0.88

3 10 0.22 1e+04 0.8 0.0 27 45 133 151 127 157 0.88

4 10 0.066 3.1e+03 2.4 0.1 26 46 160 180 155 187 0.88

5 10 0.033 1.5e+03 3.4 0.1 26 46 188 208 182 214 0.88

6 10 0.02 9.2e+02 4.1 0.0 27 46 217 236 213 243 0.88

7 10 1.1 5e+04 -1.5 0.0 26 46 244 264 238 271 0.86

8 10 0.01 4.7e+02 5.0 0.0 27 46 273 292 267 298 0.88

9 10 0.97 4.5e+04 -1.3 0.0 27 46 301 320 299 327 0.75

10 10 0.0027 1.2e+02 6.9 0.0 27 45 329 347 322 350 0.90

#	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	0.014	6.3e+02	4.6	0.0	26	46	76	96	68	102	0.87
2	10	0.02	9e+02	4.1	0.0	27	46	105	124	100	130	0.88
3	10	0.22	1e+04	0.8	0.0	27	45	133	151	127	157	0.88
4	10	0.066	3.1e+03	2.4	0.1	26	46	160	180	155	187	0.88
5	10	0.033	1.5e+03	3.4	0.1	26	46	188	208	182	214	0.88
6	10	0.02	9.2e+02	4.1	0.0	27	46	217	236	213	243	0.88
7	10	1.1	5e+04	-1.5	0.0	26	46	244	264	238	271	0.86
8	10	0.01	4.7e+02	5.0	0.0	27	46	273	292	267	298	0.88
9	10	0.97	4.5e+04	-1.3	0.0	27	46	301	320	299	327	0.75
10	10	0.0027	1.2e+02	6.9	0.0	27	45	329	347	322	350	0.90

Coding Sequence: ATGTTAATTTCGAACATACGTTCAGATATAAATGAAGAAATATGTTACAATAGGCGAACTAGTTCAGTTAAGCAGAGGGAACCTGAAACTTTGATTCAGCCGCACACATTAACAGAGAGGAATGCAGATCATAAGGATAGTACAAGAAACAAATTTGACAAAAATTTGGCCACTCTTAATCACTTGAGAGATAGGAAATTCAAACATAGTGGAATTAAAACGTATAAGTGTGATGTGTGTTATAAAACGTTTGCTTGGTCATCTAATTTGTCACAACATAAACAAATCCACAATAGAGTTAAAATGTATGAGTGTGATGTGTGTCTGAAAACCTTCACCCAGTCATCTAATTTGTCACAGCATAAACAAATCCACAGTGGAATTAAAAAGTATGAGTGTGATGTGTGTCTTAAAACCTTCACCCATTCATCTAATTTGTCACAACATAAACAAATCCACAGTGGAATTAAAATGGATAAGTGTGTTGTATGTCAGAAAACATTTACCCGGTCATCTGATTTGTCACGACATATGCAAATCCATAGTGAAATTAAAAAGTATGAGTGTGATTTGTGTCATAAAACCTTCACCCGGTCACCTAATTTGTCACGGCATAAACAAATCCACAGTGGAATAAAAAAGTATGAGTGTGATGTGTGTTATAAAACGTTTGCTTGGTCATCTAACTTGTCACAACATAAACAAATCCACAGTGGAATTAAAAAGTATAAGTGCGATGTATGTCAGAAAACATTTACCCGGTCATCTGATTTGTCAGGACATATGCAAATCCACAGTGGAATTAAAAAGTATGAGTGTGATGTGTGTCATAAAACCTTCACCCAGTCATCTAATTTGTCACAACATAAACAAATCCACAGTGGAATTAAAAAGTATAAGTGCGATGGATGTCCGAAAACCTTTACCCGCTCATCTGATTTGTCACGACATATACAAATCCACAGTGGAATTAAAAAGTACGAGTGTGATGTGTGTCATAAAACCTTCACCCAGTCACCTAATTTGTCACGGCATAAACAAATCCACAATGGAATTTAA
Protein Sequence: MLISNIRSDINEEICYNRRTSSVKQREPETLIQPHTLTERNADHKDSTRNKFDKNLATLNHLRDRKFKHSGIKTYKCDVCYKTFAWSSNLSQHKQIHNRVKMYECDVCLKTFTQSSNLSQHKQIHSGIKKYECDVCLKTFTHSSNLSQHKQIHSGIKMDKCVVCQKTFTRSSDLSRHMQIHSEIKKYECDLCHKTFTRSPNLSRHKQIHSGIKKYECDVCYKTFAWSSNLSQHKQIHSGIKKYKCDVCQKTFTRSSDLSGHMQIHSGIKKYECDVCHKTFTQSSNLSQHKQIHSGIKKYKCDGCPKTFTRSSDLSRHIQIHSGIKKYECDVCHKTFTQSPNLSRHKQIHNGI

Sequence clustering based on sequence similarity using MMseqs2