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 0.44 80 3.1 0.6 13 34 19 40 7 55 0.70

2 9 1.7e-05 0.0031 17.2 0.1 21 46 55 80 50 86 0.86

3 9 0.045 8.2 6.3 0.1 21 46 83 108 79 114 0.86

4 9 0.017 3 7.7 0.0 21 50 111 140 107 142 0.86

5 9 0.023 4.2 7.3 0.0 21 46 139 164 136 170 0.87

6 9 0.0011 0.2 11.5 0.0 21 45 167 191 163 195 0.91

7 9 0.019 3.5 7.5 0.2 21 46 195 220 191 226 0.86

8 9 1.8 3.3e+02 1.2 0.1 21 45 223 247 219 254 0.83

9 9 0.024 4.4 7.2 0.1 27 44 257 274 251 279 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	0.44	80	3.1	0.6	13	34	19	40	7	55	0.70
2	9	1.7e-05	0.0031	17.2	0.1	21	46	55	80	50	86	0.86
3	9	0.045	8.2	6.3	0.1	21	46	83	108	79	114	0.86
4	9	0.017	3	7.7	0.0	21	50	111	140	107	142	0.86
5	9	0.023	4.2	7.3	0.0	21	46	139	164	136	170	0.87
6	9	0.0011	0.2	11.5	0.0	21	45	167	191	163	195	0.91
7	9	0.019	3.5	7.5	0.2	21	46	195	220	191	226	0.86
8	9	1.8	3.3e+02	1.2	0.1	21	45	223	247	219	254	0.83
9	9	0.024	4.4	7.2	0.1	27	44	257	274	251	279	0.89

Coding Sequence: ATGTCCCGCGAGCGTGAGCCCCGTCACCGCACGGCTGGATCGTCAGCGTCCGTGCGTGCTCCACGCGGTGCCTGCAATGGAGAGAAGCGTCTGGAGTGTCCAGTGTGCGAGAAGCAGTTCGCCTTTAGAAGTCAACTAGAAACGCACCTTCGGACCCACACCGAGGAGAAGCCCTTCGAATGCACAGTTTGCAGGAAGAGCTTCACTCAAAGTGGAAATCTCAGAAGGCATCTTCggacccacaccggggagaagcctttcgagtgcgcaGTTTGCAGGCAGAAGTTCAGTCGAAGTGGTAGTCTCAGAGCACAccttcgcacccacaccggggagaagccttttgagtgcacagtttgcaacatGAAGTTCACTGAAAGTGGAAGTCTCAGAACGCATCTTCgaatccacaccggggagaagcctttcgagtgcacagtttgccaGAAAAAGTTCACTCGAAGTGGAGATCTTAGAAACCAccttcgcacccacaccggggagaagcctttcgagtgcacagtttgcaagaaGAAGTTCAATGAAAGTAGTAATCTGAGAAAGCACCTGCGCACCCACACCCGGGAGAAGCCTtccgagtgcacagtttgcaagaaGAAGTTCACAAAAAGTTGTTATCTGAGAACGCAccttcgcacccacaccggggagaagcctttcgagtgcaaaGTTTGCAATAAGAAGTTCGCTCGAAGTGGACACCTTAGCGAACACGTCCGCATCCACACTGGGAAGAAGCGTTTCGAGTGCACCGTTTGCAAAAAGAAGTTTGTTCAAAGTGGACAGCTTCGAAGGCACCTTCTGACGCACACCAAGGATACGCATCGTGAGTGA
Protein Sequence: MSREREPRHRTAGSSASVRAPRGACNGEKRLECPVCEKQFAFRSQLETHLRTHTEEKPFECTVCRKSFTQSGNLRRHLRTHTGEKPFECAVCRQKFSRSGSLRAHLRTHTGEKPFECTVCNMKFTESGSLRTHLRIHTGEKPFECTVCQKKFTRSGDLRNHLRTHTGEKPFECTVCKKKFNESSNLRKHLRTHTREKPSECTVCKKKFTKSCYLRTHLRTHTGEKPFECKVCNKKFARSGHLSEHVRIHTGKKRFECTVCKKKFVQSGQLRRHLLTHTKDTHRE

Sequence clustering based on sequence similarity using MMseqs2