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 8 0.0077 0.61 10.2 1.6 26 47 29 50 10 55 0.78

2 8 1 81 3.4 0.1 21 44 52 75 48 80 0.88

3 8 0.0013 0.1 12.7 0.2 21 45 80 104 76 110 0.90

4 8 0.0074 0.59 10.3 0.1 21 47 108 134 104 140 0.85

5 8 0.019 1.5 9.0 0.2 21 47 136 162 132 167 0.85

6 8 0.057 4.5 7.4 0.1 21 46 164 189 160 195 0.84

7 8 0.4 32 4.7 0.1 21 47 192 218 188 223 0.84

8 8 0.38 30 4.8 0.1 21 44 220 243 216 246 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	8	0.0077	0.61	10.2	1.6	26	47	29	50	10	55	0.78
2	8	1	81	3.4	0.1	21	44	52	75	48	80	0.88
3	8	0.0013	0.1	12.7	0.2	21	45	80	104	76	110	0.90
4	8	0.0074	0.59	10.3	0.1	21	47	108	134	104	140	0.85
5	8	0.019	1.5	9.0	0.2	21	47	136	162	132	167	0.85
6	8	0.057	4.5	7.4	0.1	21	46	164	189	160	195	0.84
7	8	0.4	32	4.7	0.1	21	47	192	218	188	223	0.84
8	8	0.38	30	4.8	0.1	21	44	220	243	216	246	0.90

Coding Sequence: ATGAAGAATTCAATTCAGATCGAAGCAGCAATAGAGATTCCACTAAACAGGAACCAAGCTGTAAAAAATATTGCTGACAAATATAAATGTAAAATATGTTCGAGATGTTTCACACAATCCTGTAATTTAAAAAGGCATATTAGAACTCACACTAACGAAAAACCTTTTAAATGTGAAAATTGTTCGAAATGTTTTATACAATTCAGTGAATTAAAAAGGCATATTAGAACTCACACTAACGAAAAACCTTTTAAATGTGAAATTTGTTCGAAATGTTTTACACAATCCAGTGAATTAAAAAGGCATATTAGAACTCACACTAACGAGAAACCTTTTAAATGTGAAATTTGTTCGAAATGTTTTACACAGAACAGTAATTTAAAAACGCATATTAGAACTCACACTAACGAAAAACCTTTTAAATGTGAAAATTGTTCGAAATGTTTTACACAATCCAGTGAATTAAAAAGGCATATTAGAACTCACACTAACGAGAAACCTTTTAAATGTGAAATTTGTTCGAAATGTTTTATACAATCCGCTGCTTTAAAATTTCATATTAGAACTCACACTAACGAAAAACCTTTTAAATGTGAAAATTGTTCGAAATGTTTTATACAATCCAGTGAATTAAAAAATCATATTAGAACTCACACTAACGAAAAACCTTTTAAATGTGAAAATTGTTCGAAATGTTTCACACAGAACAGTAATTTAAAAACTCATATTAAAAAAAACATTAAGTAA
Protein Sequence: MKNSIQIEAAIEIPLNRNQAVKNIADKYKCKICSRCFTQSCNLKRHIRTHTNEKPFKCENCSKCFIQFSELKRHIRTHTNEKPFKCEICSKCFTQSSELKRHIRTHTNEKPFKCEICSKCFTQNSNLKTHIRTHTNEKPFKCENCSKCFTQSSELKRHIRTHTNEKPFKCEICSKCFIQSAALKFHIRTHTNEKPFKCENCSKCFIQSSELKNHIRTHTNEKPFKCENCSKCFTQNSNLKTHIKKNIK

Sequence clustering based on sequence similarity using MMseqs2