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 11 0.0032 7.6 8.8 0.5 18 48 8 38 4 41 0.83

2 11 0.00085 2 10.6 0.5 18 48 37 67 36 69 0.92

3 11 0.0072 17 7.6 0.6 18 48 66 96 65 98 0.91

4 11 0.00049 1.2 11.4 0.3 18 49 95 126 94 131 0.90

5 11 0.98 2.4e+03 0.8 0.4 22 48 128 154 126 155 0.72

6 11 0.0023 5.5 9.2 0.5 17 48 152 183 148 185 0.94

7 11 6.5e-05 0.16 14.2 0.6 18 49 182 213 181 219 0.90

8 11 0.6 1.4e+03 1.5 1.0 23 47 245 269 240 278 0.84

9 11 4.2 1e+04 -1.2 0.1 22 48 273 299 270 301 0.78

10 11 0.0016 4 9.7 1.2 17 49 297 329 284 334 0.80

11 11 0.37 9e+02 2.1 0.3 18 51 327 360 326 362 0.84

#	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	11	0.0032	7.6	8.8	0.5	18	48	8	38	4	41	0.83
2	11	0.00085	2	10.6	0.5	18	48	37	67	36	69	0.92
3	11	0.0072	17	7.6	0.6	18	48	66	96	65	98	0.91
4	11	0.00049	1.2	11.4	0.3	18	49	95	126	94	131	0.90
5	11	0.98	2.4e+03	0.8	0.4	22	48	128	154	126	155	0.72
6	11	0.0023	5.5	9.2	0.5	17	48	152	183	148	185	0.94
7	11	6.5e-05	0.16	14.2	0.6	18	49	182	213	181	219	0.90
8	11	0.6	1.4e+03	1.5	1.0	23	47	245	269	240	278	0.84
9	11	4.2	1e+04	-1.2	0.1	22	48	273	299	270	301	0.78
10	11	0.0016	4	9.7	1.2	17	49	297	329	284	334	0.80
11	11	0.37	9e+02	2.1	0.3	18	51	327	360	326	362	0.84

Coding Sequence: ATGAAAAGACATGTGATGCCCCGGCATACAGTTGAGAAACCTCTTCAATGTCcgcactgtgattataaatcagtaaGATCTGAAGCTATGAAAAGACATGTTATGGCTCGCCATACAgatgagaagcctcatcaatgtcctcactgtaaTTACAAATCAGCAcaatctggaaatatgaaaatacatgtaatggcccgtcatgcgggtgagaagcctcatcaatgtcctcattgcgaTTATAAATCAGCCATGTCTGAAACTATGAAAAGACATGTAATGGCCCGTCacacaggtgagaagcctcatcaatgtcctcactgtgattataaatcagcacaatcTGGAGCTATGAAAAAGCATATAATGGtccgtcatacaggtgagaagcctcatcaatgtcctcactgtgattacaAATCAGTGAACTCTGGAGCTATCAAAATACATGTTATATCCCGTCATTCAGGTGAGAAGCcccatcaatgtcctcactgtgattataaatcagcagaaTCTGGAACTATGAAAAGACATATAATAGCCCGTCATGAAGAggagaagcctcatcactgtcctcactgtgattataagtCAGCAAAATCTGGAAATATAAAAAGACATATTATGGtccgtcatacaggtgagaagccttaTCTCTGTTCTCACTGCGATTATAAGTCAGCAGACTGTGGAAATATGAAAACACATGTAATGGCCTGTCATACAGGTGttaagcctcatcaatgtcctcactgtgattataaatcagcaagaTCTGAAGCTATGAAAAGACATGTAATGGCCTGCCATAAAGGTGAGAAAcgtcatcaatgtcctcactgtgattataaatcagcagaaTCTGGAACTATGAAAATACATGTTATGGCCCGGCATACaattgagaagcctcatcaatgtcctcactgtgattataaatcagtaaGATCTGAAGCTATGAAAAGACATGTTATGGCCcgtcatactggtgagaagcctcatcaatgttctcactgtgattataaatcaacaGAATATGGAACTATGAAAAGACATATAATTGCCCGTCATACAGGTAAGAAGCCTCATTGA
Protein Sequence: MKRHVMPRHTVEKPLQCPHCDYKSVRSEAMKRHVMARHTDEKPHQCPHCNYKSAQSGNMKIHVMARHAGEKPHQCPHCDYKSAMSETMKRHVMARHTGEKPHQCPHCDYKSAQSGAMKKHIMVRHTGEKPHQCPHCDYKSVNSGAIKIHVISRHSGEKPHQCPHCDYKSAESGTMKRHIIARHEEEKPHHCPHCDYKSAKSGNIKRHIMVRHTGEKPYLCSHCDYKSADCGNMKTHVMACHTGVKPHQCPHCDYKSARSEAMKRHVMACHKGEKRHQCPHCDYKSAESGTMKIHVMARHTIEKPHQCPHCDYKSVRSEAMKRHVMARHTGEKPHQCSHCDYKSTEYGTMKRHIIARHTGKKPH

Sequence clustering based on sequence similarity using MMseqs2