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 6.2 4.9e+02 0.9 0.1 26 48 48 70 35 76 0.78

2 9 6.1 4.8e+02 1.0 0.1 21 52 71 102 57 104 0.81

3 9 9.5 7.5e+02 0.3 0.2 21 34 99 112 95 124 0.74

4 9 5.8 4.6e+02 1.0 0.1 20 35 126 141 116 151 0.72

5 9 8.1 6.4e+02 0.6 0.0 21 44 155 178 147 183 0.83

6 9 0.0011 0.09 12.9 0.3 21 51 183 213 175 216 0.85

7 9 0.0021 0.16 12.1 0.2 11 46 228 264 226 270 0.79

8 9 0.86 68 3.7 0.0 21 44 267 290 263 294 0.90

9 9 0.0012 0.095 12.8 0.0 21 45 295 319 290 325 0.89

#	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	6.2	4.9e+02	0.9	0.1	26	48	48	70	35	76	0.78
2	9	6.1	4.8e+02	1.0	0.1	21	52	71	102	57	104	0.81
3	9	9.5	7.5e+02	0.3	0.2	21	34	99	112	95	124	0.74
4	9	5.8	4.6e+02	1.0	0.1	20	35	126	141	116	151	0.72
5	9	8.1	6.4e+02	0.6	0.0	21	44	155	178	147	183	0.83
6	9	0.0011	0.09	12.9	0.3	21	51	183	213	175	216	0.85
7	9	0.0021	0.16	12.1	0.2	11	46	228	264	226	270	0.79
8	9	0.86	68	3.7	0.0	21	44	267	290	263	294	0.90
9	9	0.0012	0.095	12.8	0.0	21	45	295	319	290	325	0.89

Coding Sequence: ATGAAAAAAGAAGAATTACACTCTACAATAGATTTACCGGATTTTAAAATCGAATTTCAAGATTCTGATGAAGAATTAAATTCAGAACGAGATTCAACAAAACAGGAACCGAGTTATAAAAATATTGCCGATAAATTTTTTAAATGTAAATTATGTTCGAAATGTTTTGCACACTCGGGTAGTTTAAATAGGCATATTAGAACTCATACTAACGAGAAACCTTTTAAATGTGAAAATTGTTCAAAATGTTTCTCACTTTTTGGTAATTTAAACAAGCATATTAGAATTCACACTAACGAGAAACCTTATAAATGTAAAATTTGTTCGAAATGTTTCACACTTTTAGAAACTTTAAAAAAGCATAATAGAACTCACACTGGCGAGAGACCTTTTAAATGTAAAATATGTTCGAAATCTTTCACACAATTCAGTATTTTAAAATCTTATATTAGCACTCACACTGGAGAAAAATCTTTTAAATGTAAAATTTGTTCGAAATGTTTCACAAAATCCAGTCTTTTAAAAGCTCATATTAGAACTCACACTGGAGAAAAACCTTTTAAATGTAAAATATGTTTGAAATGTTTCACACAATCCTGTAATTTAAAAAGTCATATTAAAACTCACACAAACGAGAAACCTTTTAAATGTGAATTTTGTTCGAAACGTTTCACACTATTTGGTACTTTAAAAAAGCATATTAGAACTCACACTAACGAGAAACCTTTTAATTGTAAATTATGTTCGAAATGTTTCACACAATCCAGTACTTTAAAAAGGCATATTAAAACTCACACTGGCGAGAAACCTTTTAAATGTAAATTATGTTCGAAATATTTCACAGAATCCGGTAGTTTAAATAGACATATTAGAACTCACACTAACGAAAAACCTTTTAAATGTAAAATATGTTTAAAAGATTTCAGAGATTCCAGTAATTTAAAAAAACACATTAGAACTCACATTGACAAAAACGCAAACTAA
Protein Sequence: MKKEELHSTIDLPDFKIEFQDSDEELNSERDSTKQEPSYKNIADKFFKCKLCSKCFAHSGSLNRHIRTHTNEKPFKCENCSKCFSLFGNLNKHIRIHTNEKPYKCKICSKCFTLLETLKKHNRTHTGERPFKCKICSKSFTQFSILKSYISTHTGEKSFKCKICSKCFTKSSLLKAHIRTHTGEKPFKCKICLKCFTQSCNLKSHIKTHTNEKPFKCEFCSKRFTLFGTLKKHIRTHTNEKPFNCKLCSKCFTQSSTLKRHIKTHTGEKPFKCKLCSKYFTESGSLNRHIRTHTNEKPFKCKICLKDFRDSSNLKKHIRTHIDKNAN

Sequence clustering based on sequence similarity using MMseqs2