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 0.017 1.4 9.1 0.4 26 51 74 99 59 101 0.85

2 9 3.1 2.4e+02 1.9 0.0 23 44 99 120 95 123 0.88

3 9 0.014 1.1 9.4 0.6 20 44 124 148 117 152 0.84

4 9 0.00079 0.062 13.4 0.2 21 51 153 183 149 185 0.87

5 9 2.8 2.2e+02 2.1 0.1 21 45 181 205 177 208 0.83

6 9 1.3 99 3.2 0.1 26 51 214 239 207 240 0.83

7 9 0.055 4.3 7.5 0.6 21 44 237 260 233 264 0.91

8 9 0.036 2.8 8.1 0.2 21 45 265 289 261 296 0.86

9 9 0.51 40 4.4 0.3 21 48 293 320 289 324 0.86

#	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	0.017	1.4	9.1	0.4	26	51	74	99	59	101	0.85
2	9	3.1	2.4e+02	1.9	0.0	23	44	99	120	95	123	0.88
3	9	0.014	1.1	9.4	0.6	20	44	124	148	117	152	0.84
4	9	0.00079	0.062	13.4	0.2	21	51	153	183	149	185	0.87
5	9	2.8	2.2e+02	2.1	0.1	21	45	181	205	177	208	0.83
6	9	1.3	99	3.2	0.1	26	51	214	239	207	240	0.83
7	9	0.055	4.3	7.5	0.6	21	44	237	260	233	264	0.91
8	9	0.036	2.8	8.1	0.2	21	45	265	289	261	296	0.86
9	9	0.51	40	4.4	0.3	21	48	293	320	289	324	0.86

Coding Sequence: ATGCATTCTAGGAAAAAATGTTTTCTACCAGCACCAAAAAAGTATCAACCTCACTTTGGGAAATTTTATGGGACATGTTCCTCTTGTGGACAATTTTTCTGTGATAAATTGCTATTTTTAAACCATTTTTATATATACCACTTTTTAGTTAATTCCAAAAAATCTGTTAACTTAAGAAGGAATAATTCTGATAAAAAACATATTGAACAAATGTTCTTTAAATGCGAAATTTGTACAAAATGTTTCACACAATCCAGTGATTTAAAAAGGCATATTAGAATTCACACTGACAAGAAACCTTTTAAATGTAAAATTTGTTCAAAATATTTAACATCTTCCAGTAAATTAAAAGATCATATTAGATCTCACACTGGTGAGAAACCTTTTAAATGTAAAATTTGCTCAAAATGTTTCCGAAGAGCAAGTCATTTAAATAGACATATTAGAACTCACACTGGTGAGAAACCTTTTAGATGTGAAATTTGTTCAAAATGTTTCACACAATCTAGTGATTTAAAAAGGCATATTAGAATTCACACTGGTGAGAAACCTTTTAAGTGTGAAATTTGTTTAAAATGTTTCAAAAATCAAATTTATTTTAAAAAACATATTAGAATTCATACTGGTGAAAATTTATTCAAATGTGAAGTATGTTCAAAATGTTTCACACAATCCAGTAGTTTAAAAATGCATGTTAGAATTCACGCTAACGAGAAACCTTTTAAATGTGAAATTTGTTCAAAATGTTTCCGAAGAGCAGGTCATTTAAATAGACATATTAGAACTCATACTGGTGAAAAACCTTTTAGATGTGAAATTTGTTCAAAATGTTTCACACAATCCAGTAGTTTAAAAACTCATATTAGAACTCACACTGGTGAAAAACCATTTAGATGTGAAATTTGTTCGAAATGTTATGTAAAAAAAATTAATTTAAAACAGCATGTTGTTAGAGATCACATTGGTGAAAAGTCATTGAAATGTGTTCAAAATGTTTCTCACAACAAAGTAATTTAA
Protein Sequence: MHSRKKCFLPAPKKYQPHFGKFYGTCSSCGQFFCDKLLFLNHFYIYHFLVNSKKSVNLRRNNSDKKHIEQMFFKCEICTKCFTQSSDLKRHIRIHTDKKPFKCKICSKYLTSSSKLKDHIRSHTGEKPFKCKICSKCFRRASHLNRHIRTHTGEKPFRCEICSKCFTQSSDLKRHIRIHTGEKPFKCEICLKCFKNQIYFKKHIRIHTGENLFKCEVCSKCFTQSSSLKMHVRIHANEKPFKCEICSKCFRRAGHLNRHIRTHTGEKPFRCEICSKCFTQSSSLKTHIRTHTGEKPFRCEICSKCYVKKINLKQHVVRDHIGEKSLKCVQNVSHNKVI

Sequence clustering based on sequence similarity using MMseqs2