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 7 6 4.7e+02 1.0 0.1 25 46 87 108 73 114 0.79

2 7 0.011 0.89 9.7 0.1 21 44 111 134 103 138 0.89

3 7 0.045 3.6 7.8 0.2 21 47 139 165 135 170 0.82

4 7 0.48 38 4.5 0.1 21 45 167 191 163 194 0.89

5 7 0.016 1.3 9.2 0.1 21 47 195 221 192 226 0.85

6 7 0.0053 0.42 10.8 0.1 22 47 224 249 219 254 0.82

7 7 0.00079 0.062 13.4 0.1 21 45 251 275 246 277 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	7	6	4.7e+02	1.0	0.1	25	46	87	108	73	114	0.79
2	7	0.011	0.89	9.7	0.1	21	44	111	134	103	138	0.89
3	7	0.045	3.6	7.8	0.2	21	47	139	165	135	170	0.82
4	7	0.48	38	4.5	0.1	21	45	167	191	163	194	0.89
5	7	0.016	1.3	9.2	0.1	21	47	195	221	192	226	0.85
6	7	0.0053	0.42	10.8	0.1	22	47	224	249	219	254	0.82
7	7	0.00079	0.062	13.4	0.1	21	45	251	275	246	277	0.90

Coding Sequence: ATGAATATTTGTGCAATAAAAGAAGAAAAAATCGAAATTATTGACGAATCAAAACGAGAATTCAACTATTTTGATCAGATGGAAAAAATTGAAGAATATGAGGTGAATCTTGAATTTGAAATTAAAAAAGAAGAATTAGATTCTACAATAGATTTACCGGATTTTAAAATCGAATTTCAAGATTCTGATGAAGAATTAAATTCAGAACAAGATTCAACAAAACAGGAACCGAGTTATAAAAATATTGCCGATAAATTTTTTAAATGTAAAATTTGTTCGAAATATTTCACAAAATCCAGTCATTTAAAATGTCATATTAGAACTCACACTAACGAGAAACCTTTTAAATGTAAGATTTGTTCGAAATGTTTCACAGAATCCGGCAATTTAAAGAAGCACATTAGAAGTCACACTAACGAAAAACCATTTAAATGTAAGATTTGTTCAAAATGTTTCACACAATCCGGTCATTTAAATTGTCATATTAAAACTCACACTAACGAAAAACCTTTTAAATGTAATATTTGTTCGAAATATTTCACAGAATCCTGTCATTTAAAAACTCATATTAAAACTCACACTGGGGAAAAACCTTTTAAATGTGAAATTTGTTCGAAATGTTTCACACAATCAAATAGTTTAAAATCTCATATTAGAACTCACACTAACCAGAAACCTTTTAAATGTAAGATTTGTTCAAAATGTTTCACACAATCAGGTAATTTAAAAAATCATATTAGAACTCACACGAACGAAAAACCATTTAAATGTGAAATTTGTTCGAAATATTTTAAACAATCCCGTTCTTTAAAAAATCATATAAAAACTCACTAA
Protein Sequence: MNICAIKEEKIEIIDESKREFNYFDQMEKIEEYEVNLEFEIKKEELDSTIDLPDFKIEFQDSDEELNSEQDSTKQEPSYKNIADKFFKCKICSKYFTKSSHLKCHIRTHTNEKPFKCKICSKCFTESGNLKKHIRSHTNEKPFKCKICSKCFTQSGHLNCHIKTHTNEKPFKCNICSKYFTESCHLKTHIKTHTGEKPFKCEICSKCFTQSNSLKSHIRTHTNQKPFKCKICSKCFTQSGNLKNHIRTHTNEKPFKCEICSKYFKQSRSLKNHIKTH

Sequence clustering based on sequence similarity using MMseqs2