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 12 0.026 2 8.6 0.0 21 46 11 36 3 42 0.85

2 12 4.6 3.7e+02 1.3 0.1 21 44 39 62 36 65 0.80

3 12 0.21 17 5.6 0.1 21 45 67 91 56 95 0.86

4 12 0.0026 0.2 11.8 0.0 21 47 95 121 92 126 0.86

5 12 0.47 37 4.5 0.1 21 42 123 144 119 149 0.87

6 12 0.14 11 6.2 0.1 21 44 151 174 147 178 0.90

7 12 0.6 47 4.2 0.1 21 45 179 203 175 206 0.89

8 12 0.002 0.16 12.1 0.0 21 45 207 231 203 234 0.91

9 12 0.036 2.9 8.1 0.1 21 45 235 259 231 266 0.87

10 12 0.14 11 6.2 0.1 21 44 263 286 259 290 0.90

11 12 0.0052 0.41 10.8 0.0 21 44 291 314 287 318 0.90

12 12 0.0026 0.21 11.8 0.0 21 44 319 342 315 345 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	12	0.026	2	8.6	0.0	21	46	11	36	3	42	0.85
2	12	4.6	3.7e+02	1.3	0.1	21	44	39	62	36	65	0.80
3	12	0.21	17	5.6	0.1	21	45	67	91	56	95	0.86
4	12	0.0026	0.2	11.8	0.0	21	47	95	121	92	126	0.86
5	12	0.47	37	4.5	0.1	21	42	123	144	119	149	0.87
6	12	0.14	11	6.2	0.1	21	44	151	174	147	178	0.90
7	12	0.6	47	4.2	0.1	21	45	179	203	175	206	0.89
8	12	0.002	0.16	12.1	0.0	21	45	207	231	203	234	0.91
9	12	0.036	2.9	8.1	0.1	21	45	235	259	231	266	0.87
10	12	0.14	11	6.2	0.1	21	44	263	286	259	290	0.90
11	12	0.0052	0.41	10.8	0.0	21	44	291	314	287	318	0.90
12	12	0.0026	0.21	11.8	0.0	21	44	319	342	315	345	0.90

Coding Sequence: CATTTAAAATGTCATATTAGAACTCACACTAACGAGAAACCTTTTAAATGTAAGATTTGTTCGAAATATTTCACAGAATCCGGTAATTTAAAAAATCATATTAAAACTCACACTGGGGAAAAACCTTTTAAATGTAAAATATGTTCGAAATGTTTCACACAATTGGGTCATGTAAAAACTCACATTAGAACTCACACCAACGAGAAACCTTTTAAATGTAAATTATGTTCGAAATGTTTCACACAATCCACTATTTTAAAAAATCATATTAAAACTCACACAAATGAAAAACCTTTTAAATGTAATATTTGTTCGAAATATTTCACACAATCCGGTAATTTAAAAAATCATATTAAAACTCACACGAACGAAAAACCTTTTAAATGTGAAATTTGTTCGAAATGTTTCACACAATCAAGTAGTTTAAAATATTATATTAGAACTCACACTGGAGAAAAACCTTTTAAATGTAAATTATGTTCGAAATGTTTCACAGAATCCAGTAAATTAAAAAGGCATATTAGAACTCACACTAACGAGACACCTTTTAAATGTAAATTATGTTCGAAATGTTTCACACAATCCACTATTTTAAAAAATCATATTAAAACTCACACAAATGAAAAACCTTTTAAATGTAATATTTGTTCGAAATATTTCACACAATCCGGTAATTTAAAAAAGCATATTAAAACTCACACGAACGAAAAACCTTTTAAATGTGAAATTTGTTCGAAATGTTTCACACAATCAAGTAGTTTAAAATATCATATTAGAACTCACACTGGAGAAAAACCTTTTAAATGTAAATTATGTTCGAAATGTTTCACAGAATCCAGTAAATTAAAAAGGCATATTAGAACTCACACTAACGAGAAACCTTTTAAATGTAATATTTGTTCGAAATATTTCACACAATCTGGTAATTTAAAAAATCATATTAGAACTCACACGAACGAAAAACCTTTTAAATGTGAAATTTGTTCGAAATATTTTAAACAATCCCGTAGTTTAAAAATTCATATAAAAAATCACTAA
Protein Sequence: HLKCHIRTHTNEKPFKCKICSKYFTESGNLKNHIKTHTGEKPFKCKICSKCFTQLGHVKTHIRTHTNEKPFKCKLCSKCFTQSTILKNHIKTHTNEKPFKCNICSKYFTQSGNLKNHIKTHTNEKPFKCEICSKCFTQSSSLKYYIRTHTGEKPFKCKLCSKCFTESSKLKRHIRTHTNETPFKCKLCSKCFTQSTILKNHIKTHTNEKPFKCNICSKYFTQSGNLKKHIKTHTNEKPFKCEICSKCFTQSSSLKYHIRTHTGEKPFKCKLCSKCFTESSKLKRHIRTHTNEKPFKCNICSKYFTQSGNLKNHIRTHTNEKPFKCEICSKYFKQSRSLKIHIKNH

Sequence clustering based on sequence similarity using MMseqs2