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 0.015 37 6.6 0.1 19 48 4 33 2 35 0.85

2 11 0.012 29 6.9 0.1 20 49 34 63 31 67 0.89

3 11 0.021 50 6.1 0.1 17 48 60 91 52 94 0.86

4 11 0.0072 17 7.6 0.4 17 49 89 121 85 126 0.89

5 11 0.48 1.2e+03 1.8 1.1 18 48 119 149 117 150 0.74

6 11 0.00064 1.5 11.0 0.1 17 48 147 178 141 182 0.91

7 11 0.06 1.5e+02 4.7 0.1 18 45 177 204 174 208 0.84

8 11 0.14 3.5e+02 3.5 1.0 20 48 208 236 205 245 0.79

9 11 0.087 2.1e+02 4.2 0.2 21 49 267 295 263 299 0.85

10 11 0.11 2.6e+02 3.9 0.8 18 48 293 323 291 324 0.85

11 11 7.7e-05 0.18 13.9 0.3 17 49 321 353 317 358 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	11	0.015	37	6.6	0.1	19	48	4	33	2	35	0.85
2	11	0.012	29	6.9	0.1	20	49	34	63	31	67	0.89
3	11	0.021	50	6.1	0.1	17	48	60	91	52	94	0.86
4	11	0.0072	17	7.6	0.4	17	49	89	121	85	126	0.89
5	11	0.48	1.2e+03	1.8	1.1	18	48	119	149	117	150	0.74
6	11	0.00064	1.5	11.0	0.1	17	48	147	178	141	182	0.91
7	11	0.06	1.5e+02	4.7	0.1	18	45	177	204	174	208	0.84
8	11	0.14	3.5e+02	3.5	1.0	20	48	208	236	205	245	0.79
9	11	0.087	2.1e+02	4.2	0.2	21	49	267	295	263	299	0.85
10	11	0.11	2.6e+02	3.9	0.8	18	48	293	323	291	324	0.85
11	11	7.7e-05	0.18	13.9	0.3	17	49	321	353	317	358	0.90

Coding Sequence: ATGGTCCGTCGTAAAGAGaaaaagcctcatcaatgtcctcactgtgattataaatcagcagaatctggaaatatgaaaagacATGTAATGGCCAGTCATaaaggtgagaagcctcatcgatgtcctcactgtgattataaatcagcacaatcTGGAACTATGAAAGATcatgtaatggcccgtcatacaggggAGAAACCTCATCACTGCCCgcactgtgattataaaacaGCAACATCTGGAGCTATGAAAAATcatgtaatggcccgtcatacaggggAGAAACCTCATCACtgccctcactgtgattataaatcagcagaatctggaaatatgaaaatacatgtaatgcgccgtcatacaggggagaagcctcatcaatgtcctcactgcgATTATAAGTCAGTACAACTTGTATATGTGAAAAATcatgtaatggcccgtcataaAGGGGAGATACCTCATcactgtcctcactgtgattataaaacagcactatctggaaatatgaaaagacatgtaatggcccgtcatacaggggAGAAACCTCATCactgccctcattgtgattataaaacagCACAATCTGGAACTATGAAAATTCATGTAATGGCCAGTCATaaaggtgagaagcctcatcaatgtcctcactgtgattataaatcagcacgttctgaaactatgaaaatacatgtaatgcgccgtcatacaggggagaagcatcatcaatgtcctcactgtgattataaatcagtagaacttaaagatataaaatatcatgTAATGGCCTGCCATAAAGGGGagaaacctcatcaatgtcctcactgtgattataaatcagcacgtTCTGGAGATATGAAAATACATGTAGGGCGCCGTCATACAggggagaagcctcatcaatgtcctcactgcgATTATAAATCAGTACAACTTGCACATGTGAAAAAGcatgtaatggcccgtcataaaggggagaagcctcatcaatgtcctcactgtgattataaaacaGCACAATCTGGAACTATGAAAAGACATGTAATGGCCCGCCATACAGGAGAGAAACCTCATCAATGA
Protein Sequence: MVRRKEKKPHQCPHCDYKSAESGNMKRHVMASHKGEKPHRCPHCDYKSAQSGTMKDHVMARHTGEKPHHCPHCDYKTATSGAMKNHVMARHTGEKPHHCPHCDYKSAESGNMKIHVMRRHTGEKPHQCPHCDYKSVQLVYVKNHVMARHKGEIPHHCPHCDYKTALSGNMKRHVMARHTGEKPHHCPHCDYKTAQSGTMKIHVMASHKGEKPHQCPHCDYKSARSETMKIHVMRRHTGEKHHQCPHCDYKSVELKDIKYHVMACHKGEKPHQCPHCDYKSARSGDMKIHVGRRHTGEKPHQCPHCDYKSVQLAHVKKHVMARHKGEKPHQCPHCDYKTAQSGTMKRHVMARHTGEKPHQ

Sequence clustering based on sequence similarity using MMseqs2