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 0.0029 6.7 6.9 0.1 21 44 17 40 9 47 0.89

2 9 0.0052 12 6.1 0.0 22 46 46 70 42 73 0.87

3 9 0.00017 0.39 10.9 0.1 21 44 73 96 69 99 0.92

4 9 0.021 49 4.2 0.1 21 52 101 132 96 134 0.83

5 9 1.2 2.7e+03 -1.4 0.0 23 44 131 152 128 157 0.82

6 9 0.017 38 4.5 0.0 21 44 157 180 153 184 0.89

7 9 2.5e-05 0.057 13.6 0.0 21 44 185 208 182 212 0.91

8 9 6.7e-05 0.15 12.2 0.4 21 46 213 238 209 244 0.86

9 9 0.059 1.3e+02 2.8 0.1 21 51 241 271 237 273 0.82

#	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	0.0029	6.7	6.9	0.1	21	44	17	40	9	47	0.89
2	9	0.0052	12	6.1	0.0	22	46	46	70	42	73	0.87
3	9	0.00017	0.39	10.9	0.1	21	44	73	96	69	99	0.92
4	9	0.021	49	4.2	0.1	21	52	101	132	96	134	0.83
5	9	1.2	2.7e+03	-1.4	0.0	23	44	131	152	128	157	0.82
6	9	0.017	38	4.5	0.0	21	44	157	180	153	184	0.89
7	9	2.5e-05	0.057	13.6	0.0	21	44	185	208	182	212	0.91
8	9	6.7e-05	0.15	12.2	0.4	21	46	213	238	209	244	0.86
9	9	0.059	1.3e+02	2.8	0.1	21	51	241	271	237	273	0.82

Coding Sequence: ATGTTTTCTGATAAGACCAATCTGAAACAACACATCAGGATGCATACTGGGGAAAGACCTTTTTTATGCAGTTACTGTCCTGCTACTTTTTCTCAAAATGGCTCGCTGAGAAAACACATCTTGACGCATACTGGTGAAAAATCGTTTGAATGTACTTTTTGCCATGCTACATTTTCTGGTAGTAGTAGTCTGAGAAAACACATCAGGATACATACCGGTGAAAAACCTTACGAATGCAGTTTATGCAGCGCCTCATTTTCTGATAAAGGCAATTTGAGAAGACACATTCGGTCCCATACCGGTGAAAAGCCCTTTGAATGTAGCCATTGCAAAGCTTCATTCTCTGATGCAAGCTCACTTAGAGTACACACCAGGATACATACTGGTGTAAAACCCTTTCAATGTAGTTATTGCCACTATAAATTTTCTGACAAAAGCAATTTGGAACACCACATCAGGACGCATACTGGGGAAAAACCTTTTTTATGCAGTTACTGTCCTGCTACTTTTTCTCTAAATGGCACTCTGAGAAGACACATCTTGACGCATACTGGTGAAAAACCCTTTGAATGTACTTTTTGCCAAGCTACATTTTCTGGTAGTAGCAATCTGAGAAGACATATTAGGAAACATACGGGTGAAAAACCTTACGAATGCAGTTTATGCAGCGCCTCATTTGCTGATAATTGCAATCTGAGGAGACACATCAGGACGCATACAGGTGAAAAACCCTTTGAATGTAGCCATTGCAGTGTTTCATTTGCTGATCAAAGCACACTGAAAAGACACATGAAGACGCATAGTGGTGTAAAACCCATTCAATGA
Protein Sequence: MFSDKTNLKQHIRMHTGERPFLCSYCPATFSQNGSLRKHILTHTGEKSFECTFCHATFSGSSSLRKHIRIHTGEKPYECSLCSASFSDKGNLRRHIRSHTGEKPFECSHCKASFSDASSLRVHTRIHTGVKPFQCSYCHYKFSDKSNLEHHIRTHTGEKPFLCSYCPATFSLNGTLRRHILTHTGEKPFECTFCQATFSGSSNLRRHIRKHTGEKPYECSLCSASFADNCNLRRHIRTHTGEKPFECSHCSVSFADQSTLKRHMKTHSGVKPIQ

Sequence clustering based on sequence similarity using MMseqs2