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 0.00016 4.2 9.0 0.2 21 52 6 37 2 39 0.91

2 9 0.013 3.2e+02 3.0 0.1 22 32 35 45 30 59 0.77

3 9 0.029 7.3e+02 1.8 0.0 22 44 67 89 54 96 0.83

4 9 0.0035 89 4.8 0.0 21 45 122 146 114 153 0.85

5 9 0.039 1e+03 1.4 0.1 21 44 150 173 145 177 0.82

6 9 0.0012 31 6.2 0.1 21 45 178 202 173 209 0.85

7 9 0.023 5.9e+02 2.1 0.0 21 36 206 222 201 232 0.72

8 9 0.0003 7.6 8.2 0.1 21 46 234 259 228 265 0.90

9 9 0.016 4e+02 2.7 0.1 25 45 266 286 258 289 0.73

#	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	0.00016	4.2	9.0	0.2	21	52	6	37	2	39	0.91
2	9	0.013	3.2e+02	3.0	0.1	22	32	35	45	30	59	0.77
3	9	0.029	7.3e+02	1.8	0.0	22	44	67	89	54	96	0.83
4	9	0.0035	89	4.8	0.0	21	45	122	146	114	153	0.85
5	9	0.039	1e+03	1.4	0.1	21	44	150	173	145	177	0.82
6	9	0.0012	31	6.2	0.1	21	45	178	202	173	209	0.85
7	9	0.023	5.9e+02	2.1	0.0	21	36	206	222	201	232	0.72
8	9	0.0003	7.6	8.2	0.1	21	46	234	259	228	265	0.90
9	9	0.016	4e+02	2.7	0.1	25	45	266	286	258	289	0.73

Coding Sequence: ATgcggactcacactggagagaagCCATTCACCTGCGAGCTGTGCTGCGCGAAGTTCGCGCAGAGGACTCACCTGACCGTTCACATGACGACTCACACTTACGAGAAACCTTTCACCTGTGAGATATGTAAGGAGAACTTTTCGAGAAAGATGTATTTAACGAGCCACATGAGGACTCATacgaggactcacactggcgcTAAACCGTTCTCCTGCGAAGTGTGCTCGGCTAAGTTCTCACAAAAGGGCACTTTAACTTTCCACATGAGAACACATACGGGGGAAAAACTCTTCTCCTGCGAACTCTGCGAAAAGAAATTCGTACGAATGCTAGATCTGACGAGGCACAtcaggactcacactggagaaaaaccgtACGGTTGTAACTTATGTTCCGCGAAATTTGCGGATAAAAGCAACTTATCGGAACACATGCGAAAGCACACCGGCGAAAAACCCTATTATTGCGACCTGTGTCATACGAAATTTACTCAGAAATGCAGATTAACCctccacatgagaactcacactggcgaaaagccttattcgTGTGAGATATGCGAGGAGAGATTCGTCCAAAAATCGAATTTAACGACTCACATGAGGACGCACACTGGCGAGAAACCCTTCACCTGCGATCTGTGCAAGAAGAAGTTCGTGCGGAAGTCGTACTTATCCATCCACATGCGGATACACACTGGCGAGAAACCCTTCCCCTGTGGCGTGTGCTCCGCGAGGTTCACTCAGAGAAGTAATCTAATCAAACACATGAGAATCCATTCCGGCCAGAAATATTTCACGTGTACGGTTTGCGAAGCTAAGTTCATTCGCAAGTCTCAGCTCACGGATCACATGGAATGCCATTTGGGTTCTACATAA
Protein Sequence: MRTHTGEKPFTCELCCAKFAQRTHLTVHMTTHTYEKPFTCEICKENFSRKMYLTSHMRTHTRTHTGAKPFSCEVCSAKFSQKGTLTFHMRTHTGEKLFSCELCEKKFVRMLDLTRHIRTHTGEKPYGCNLCSAKFADKSNLSEHMRKHTGEKPYYCDLCHTKFTQKCRLTLHMRTHTGEKPYSCEICEERFVQKSNLTTHMRTHTGEKPFTCDLCKKKFVRKSYLSIHMRIHTGEKPFPCGVCSARFTQRSNLIKHMRIHSGQKYFTCTVCEAKFIRKSQLTDHMECHLGST

Sequence clustering based on sequence similarity using MMseqs2