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 0.031 2.5 8.3 0.5 26 46 11 31 2 37 0.82

2 10 0.45 36 4.6 0.3 18 48 30 61 29 65 0.77

3 10 0.0026 0.21 11.7 0.1 21 44 62 85 58 89 0.92

4 10 0.0021 0.16 12.1 0.1 21 52 90 121 85 121 0.82

5 10 0.008 0.63 10.2 0.2 21 43 118 140 116 145 0.92

6 10 0.057 4.5 7.4 0.1 21 46 146 171 141 173 0.89

7 10 0.0036 0.28 11.3 0.1 21 46 173 198 170 204 0.87

8 10 0.19 15 5.8 0.0 21 46 201 226 197 233 0.86

9 10 3 2.4e+02 1.9 0.0 21 44 229 252 225 255 0.88

10 10 0.26 21 5.3 0.2 21 47 257 283 248 289 0.83

#	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	0.031	2.5	8.3	0.5	26	46	11	31	2	37	0.82
2	10	0.45	36	4.6	0.3	18	48	30	61	29	65	0.77
3	10	0.0026	0.21	11.7	0.1	21	44	62	85	58	89	0.92
4	10	0.0021	0.16	12.1	0.1	21	52	90	121	85	121	0.82
5	10	0.008	0.63	10.2	0.2	21	43	118	140	116	145	0.92
6	10	0.057	4.5	7.4	0.1	21	46	146	171	141	173	0.89
7	10	0.0036	0.28	11.3	0.1	21	46	173	198	170	204	0.87
8	10	0.19	15	5.8	0.0	21	46	201	226	197	233	0.86
9	10	3	2.4e+02	1.9	0.0	21	44	229	252	225	255	0.88
10	10	0.26	21	5.3	0.2	21	47	257	283	248	289	0.83

Coding Sequence: ATGAGGACTAACAATGGACAAAAATCCTTTAAATGTGATATTTGTTTAAAATGTTTTACACAATCCCATTACTTAAAAAGACACATTAGAAGTCATAGTAGGGGAAAACCTTTTAAATGTAACATTTGTTCAAAATGTTTCACAGAACAACATCTCCTAAAACGTCATACTAAAATTCACACTGGTGAGAAACCTTTTAAATGTGAAATTTGCTCAAAATGTTTTATGCAATCCAGTGATTTAAAAAGGCATATTAGAAGTCATAGTAGTGTAACACCTTTTAAATGTAACATTTGTTCAAAATATTTCACAGAACAAAAAAACCTAAAACGTCATATTCAAATTCACACTGCTGAGAAACCTTTTAGATGTGAAATTTGTTCAAAATGTTTTATACAATCCAATGATTTAAAAAGGCATAATAGAACTCACACTGGCGAAAAACCTTTTAAATGTGAAAGTTGTTCGAAATGTTTCACAGAACAAAAAAACCTAAAACGTCATATTCAAATTCACACTGAGAAACCTTTTAGATGTGAAATTTGTTCAAAATCTTTTGTACAATCCAATGATTTACAAAGGCATATAAGAACCCACACTGGCGAAAAACCTTTTAAATGTGAAACTTGTTCGAAATGTTTTAAAAATTCCGGTCCTTTAAAAAGGCACATTAGAACCCACACTGGAGAAAAACCTTTCAAATGTGAAATGTGTTTAAAATGTTTTATAGAGTCCGGTCAGTTAACAAAGCATATTAGAACTCACACTGGTGAAAAACCTTTCAGATGTGAAATTTGTTCAAAATATTTCACACAAAAATCTCACTTAAAGGAGCATATTAGAACTCATACTAACGAGAAACCTATTAATTGTATTTAA
Protein Sequence: MRTNNGQKSFKCDICLKCFTQSHYLKRHIRSHSRGKPFKCNICSKCFTEQHLLKRHTKIHTGEKPFKCEICSKCFMQSSDLKRHIRSHSSVTPFKCNICSKYFTEQKNLKRHIQIHTAEKPFRCEICSKCFIQSNDLKRHNRTHTGEKPFKCESCSKCFTEQKNLKRHIQIHTEKPFRCEICSKSFVQSNDLQRHIRTHTGEKPFKCETCSKCFKNSGPLKRHIRTHTGEKPFKCEMCLKCFIESGQLTKHIRTHTGEKPFRCEICSKYFTQKSHLKEHIRTHTNEKPINCI

Sequence clustering based on sequence similarity using MMseqs2