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 6 0.02 76 3.9 0.3 26 46 119 139 114 142 0.89

2 6 1.6e-05 0.062 13.8 0.0 22 47 143 168 140 173 0.90

3 6 0.0015 5.7 7.5 0.1 22 45 171 194 167 197 0.89

4 6 0.011 42 4.7 0.0 21 46 197 222 194 227 0.83

5 6 0.032 1.2e+02 3.2 0.2 22 52 226 256 221 258 0.84

6 6 0.11 4e+02 1.6 0.3 21 45 253 277 249 280 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	6	0.02	76	3.9	0.3	26	46	119	139	114	142	0.89
2	6	1.6e-05	0.062	13.8	0.0	22	47	143	168	140	173	0.90
3	6	0.0015	5.7	7.5	0.1	22	45	171	194	167	197	0.89
4	6	0.011	42	4.7	0.0	21	46	197	222	194	227	0.83
5	6	0.032	1.2e+02	3.2	0.2	22	52	226	256	221	258	0.84
6	6	0.11	4e+02	1.6	0.3	21	45	253	277	249	280	0.85

Coding Sequence: ATGGAGATAAATAATTCTCCATTTAAAAGGGTAATTACAAAAGTGGAAAAATTTGACTCTGAGGATTGGCTCAACGGCGAAGGTGTCGGCGATAATCTTGCAAGAAAAGATTACAATTGCAAGTACCCGATTGATGTTAAAAAAATTAAATCAGAAGAACTTGAAAGTTCATTACACCCAAAATACATTTGTGATAAACCTGATTTAATAAAAAAAGAAAATGAGGATCCCGATCAAATTTCCATAAAAGAAGAATTTCCAATTGATATTAATTTAGTAAAAACAGAAGATGTTTCTCTGGCTCTAGAAGAAATTGAGTTAATGAAAGCAGAAGACTTCGAAAAAAGACTTTACAAGTGTGACGTATGCTCCCATAATTTCCGTCAGAAGAAACAGATCCGCATTCACATGCAAATTCACCTCCGAGAGCAACCTTACTCCTGTGACATTTGCTTTGCTACCTTCAACCTAAAAGGAAATTTGAGCACACATTTAAAAATCCACAAGGAAAAACATCCTCACACTTGCAATATTTGCTCCGCTCAATTTAAAACTGAGCAGCTTCTCGACAAGCACTTGCAAAATCACAATGAAAAATCAAGTACTTGTTACTTTTGTTACTCAAAATTTGGGAGTCAGAAACTTCTGAAGGATCACATGCGGATTCACGTGGCTGAAAATATTCTAACTTGCAACGTTTGTCATTCAAAGTTTAGTACTACCAGTAGTTTAAAGCAGCATATTAGAATTCATACTGGAGAAAAACCACATCAGTGCAATGTTTGTGAGAAGAGATTCACTGCTAGGTCTAACTATATGAGACACATGAAGACTCATAGTATAAAATAA
Protein Sequence: MEINNSPFKRVITKVEKFDSEDWLNGEGVGDNLARKDYNCKYPIDVKKIKSEELESSLHPKYICDKPDLIKKENEDPDQISIKEEFPIDINLVKTEDVSLALEEIELMKAEDFEKRLYKCDVCSHNFRQKKQIRIHMQIHLREQPYSCDICFATFNLKGNLSTHLKIHKEKHPHTCNICSAQFKTEQLLDKHLQNHNEKSSTCYFCYSKFGSQKLLKDHMRIHVAENILTCNVCHSKFSTTSSLKQHIRIHTGEKPHQCNVCEKRFTARSNYMRHMKTHSIK

Sequence clustering based on sequence similarity using MMseqs2