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 0.33 26 5.0 0.1 21 44 4 27 2 31 0.91

2 10 0.00038 0.03 14.4 0.5 21 51 34 64 27 66 0.83

3 10 0.0092 0.73 10.0 0.1 21 45 62 86 58 93 0.87

4 10 0.51 41 4.4 0.2 22 44 91 113 86 117 0.88

5 10 0.0057 0.45 10.6 0.9 7 44 104 140 99 145 0.87

6 10 0.096 7.6 6.7 0.1 21 45 145 169 141 176 0.86

7 10 0.016 1.2 9.2 0.3 21 44 173 196 168 200 0.90

8 10 0.039 3.1 8.0 0.0 21 45 201 225 197 232 0.86

9 10 0.03 2.4 8.3 0.1 22 44 230 252 226 256 0.90

10 10 0.01 0.82 9.8 0.1 21 47 257 283 253 289 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	10	0.33	26	5.0	0.1	21	44	4	27	2	31	0.91
2	10	0.00038	0.03	14.4	0.5	21	51	34	64	27	66	0.83
3	10	0.0092	0.73	10.0	0.1	21	45	62	86	58	93	0.87
4	10	0.51	41	4.4	0.2	22	44	91	113	86	117	0.88
5	10	0.0057	0.45	10.6	0.9	7	44	104	140	99	145	0.87
6	10	0.096	7.6	6.7	0.1	21	45	145	169	141	176	0.86
7	10	0.016	1.2	9.2	0.3	21	44	173	196	168	200	0.90
8	10	0.039	3.1	8.0	0.0	21	45	201	225	197	232	0.86
9	10	0.03	2.4	8.3	0.1	22	44	230	252	226	256	0.90
10	10	0.01	0.82	9.8	0.1	21	47	257	283	253	289	0.85

Coding Sequence: ATTCACACTGACGAGAAACCTTTTAAATGTGAAATATGTTCGAAATGCTTCAAACATTCTATTAGTTTAAAAACTCATATTAGATCTCACACTGGCGAGAAACAACAACCTTTTAGATGTAAAATTTGTTCAAAATGTTTCACAAACTCCAGTAATTTAAAAAGACATATTAGAATTCACACTGACGAGAAACCATTTAAATGTAAGTTTTGTTTAAAATGTTTCAGAGATTCCAGTAACTTAAAAAGTCATATTAGAACTCATACTGACGATAAACCTTTTAAATGTAAAATTTGTTCGAAATGTTTCAAACATTCCAGTACCTTAAAAAGTCATATTAGAACTCATGCTGACGAACCTTTTAAATGTAAAATATGTTCGAAATGTTTCAGAGATTCCAGTTACTTAAAAAGTCATATTAGAACTCATACTGACGAGAAACCTTTTAAATGTAAAATTTGTTCGAAATGTTTCAAACATTCCAGTACCTTAAAAACTCATATTAGAACACACACTGACGAGAAACCTTTTAAATGTAAAATATGTTCGAAATGTTTCAGAGATTGCAGTAACTTAAAAAGTCATATTAGAACTCATACTGACGAGAAACCTTTTAAATGTGAAATTTGTTCGAAATGTTTCACACAATCCGGTAGTTTAAAATCTCATATTACAACTCACACTGGCGACAAACCTTTTAAATGTAAATTATGTTCGAAATGTTTCAGAACTTCCAGTGACTTAAAAAGACATATTAGAACTCACACTGACGAGAAACCTTTTAAATGTAAAATATGTTCGAAATGTTTTACACAATCAGGTAGTTTAAAAAAACATATTAGAACTCACACTCGTGAAAAACCTTTTAAATGTTAA
Protein Sequence: IHTDEKPFKCEICSKCFKHSISLKTHIRSHTGEKQQPFRCKICSKCFTNSSNLKRHIRIHTDEKPFKCKFCLKCFRDSSNLKSHIRTHTDDKPFKCKICSKCFKHSSTLKSHIRTHADEPFKCKICSKCFRDSSYLKSHIRTHTDEKPFKCKICSKCFKHSSTLKTHIRTHTDEKPFKCKICSKCFRDCSNLKSHIRTHTDEKPFKCEICSKCFTQSGSLKSHITTHTGDKPFKCKLCSKCFRTSSDLKRHIRTHTDEKPFKCKICSKCFTQSGSLKKHIRTHTREKPFKC

Sequence clustering based on sequence similarity using MMseqs2