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 9 0.25 20 5.4 0.1 22 45 7 30 3 36 0.87

2 9 0.24 19 5.5 0.2 24 50 37 62 33 66 0.85

3 9 1 80 3.5 0.1 26 47 67 88 61 93 0.83

4 9 0.17 13 5.9 0.2 23 46 92 115 88 121 0.84

5 9 0.23 18 5.5 0.0 21 47 118 144 115 150 0.84

6 9 1.7 1.3e+02 2.8 0.1 23 49 148 173 145 178 0.83

7 9 0.0035 0.28 11.3 0.1 22 47 175 200 171 205 0.83

8 9 0.09 7.1 6.8 0.0 23 45 204 226 200 230 0.89

9 9 0.0059 0.47 10.6 0.1 21 44 230 253 228 260 0.88

#	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	9	0.25	20	5.4	0.1	22	45	7	30	3	36	0.87
2	9	0.24	19	5.5	0.2	24	50	37	62	33	66	0.85
3	9	1	80	3.5	0.1	26	47	67	88	61	93	0.83
4	9	0.17	13	5.9	0.2	23	46	92	115	88	121	0.84
5	9	0.23	18	5.5	0.0	21	47	118	144	115	150	0.84
6	9	1.7	1.3e+02	2.8	0.1	23	49	148	173	145	178	0.83
7	9	0.0035	0.28	11.3	0.1	22	47	175	200	171	205	0.83
8	9	0.09	7.1	6.8	0.0	23	45	204	226	200	230	0.89
9	9	0.0059	0.47	10.6	0.1	21	44	230	253	228	260	0.88

Coding Sequence: ATGCTAAAACACACTGGAAAAAAACCATTTAAATGTGAAATTTGTTCACACACGTTTCGACATAAAACAAGTTTAAAGAACCATCTGCTAATACACACTGGAAAAATACCATTTAAATGTGAAATTTGTTCACACACGTGTCGACAAAAATCAAGTTTAAATTCTCATATGCTAAAACACACTGGAAAAAAAACATTTAAATGTGAAATTTGTTCACACACGTTTCGACATAAAACAAGTTTAAAGAACCATCTGCTAATACACACTGGAAAAAAACCATTTAAATGTGAAATTTGTTCACACACGTGTCGACAAAAATCAAGTTTAAATACACATATGCTAATACACACTGGTGAAAAGCCATTTAAATGTGAAATTTGTTCAAACACGTTTCAACAAAAATCAGGTTTAAATTCTCATATGCTAATACACACTGGAAAAAAACCATTTAAATGTGAAATTTGTTCACACACGTTTCGACATAAAATAAGTTTAAATTCTCATATGCTAAAACACACTGGAAAAAAACCATTTAAATGTGAAACTTGTTCAGCCACGTTTCGACAAAAATCAAGTTTAAAGAGACATATGCTAATACACACTGAAAAAAAGCCATTTAAATGTGAAATTTGTTCAAACACGTTTCGAGAAAAATCAAGTTTAAAGAAACATTTGGTAATACACACTGGTGAAAGGCCATTTAAATGTGAAATTTGTTCAAATACTTTTCGACAAAAATCAAATTTATATTCACATATGCGAAAACATACTGAACAAAAAACAAATTAA
Protein Sequence: MLKHTGKKPFKCEICSHTFRHKTSLKNHLLIHTGKIPFKCEICSHTCRQKSSLNSHMLKHTGKKTFKCEICSHTFRHKTSLKNHLLIHTGKKPFKCEICSHTCRQKSSLNTHMLIHTGEKPFKCEICSNTFQQKSGLNSHMLIHTGKKPFKCEICSHTFRHKISLNSHMLKHTGKKPFKCETCSATFRQKSSLKRHMLIHTEKKPFKCEICSNTFREKSSLKKHLVIHTGERPFKCEICSNTFRQKSNLYSHMRKHTEQKTN

Sequence clustering based on sequence similarity using MMseqs2