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 0.66 1.2e+02 2.6 1.5 13 35 19 41 5 57 0.69

2 9 0.036 6.6 6.6 0.1 23 46 57 80 50 83 0.89

3 9 0.017 3 7.7 0.0 21 45 83 107 80 110 0.90

4 9 0.0052 0.96 9.3 0.1 21 46 111 136 107 142 0.86

5 9 0.0026 0.47 10.3 0.2 21 50 139 168 135 170 0.86

6 9 0.093 17 5.3 0.0 21 46 167 192 163 198 0.86

7 9 0.0042 0.77 9.6 0.0 21 50 195 224 191 226 0.86

8 9 0.0015 0.27 11.1 0.1 21 46 223 248 219 254 0.87

9 9 0.017 3.1 7.7 0.1 21 52 251 282 247 283 0.87

#	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	0.66	1.2e+02	2.6	1.5	13	35	19	41	5	57	0.69
2	9	0.036	6.6	6.6	0.1	23	46	57	80	50	83	0.89
3	9	0.017	3	7.7	0.0	21	45	83	107	80	110	0.90
4	9	0.0052	0.96	9.3	0.1	21	46	111	136	107	142	0.86
5	9	0.0026	0.47	10.3	0.2	21	50	139	168	135	170	0.86
6	9	0.093	17	5.3	0.0	21	46	167	192	163	198	0.86
7	9	0.0042	0.77	9.6	0.0	21	50	195	224	191	226	0.86
8	9	0.0015	0.27	11.1	0.1	21	46	223	248	219	254	0.87
9	9	0.017	3.1	7.7	0.1	21	52	251	282	247	283	0.87

Coding Sequence: ATGTCCCACGAGCGTGAACCCCGTCATCGCCCAGGCGGATCGTCAGCGTCCGTGCGTGCTCCTCGCGGTGCCTGCAACAAAGAGAAGCGTTTGGAGTGTCCAGTGTGCGAGAAGCAGTTCGCCTTGAGAAGTCAACTAGAAACGCACCTTCGGACCCACACTGGGgggaagcctttcgagtgcgcaGTTTGCAAACAGAAGTTCACTGTAAGTGGTAGTCTAAGAAGGCACCTTCGcgtccacaccggggagaatcCTTTTGAGTGCCCAGTTTGCAAGACGAAGTTCAACCGAAATGAAAATCTTGAAGTACAccttcgcacccacaccggggagaagccatttgagtgcacagtttgcaggCAGAGATTCACTCAAAGTGGCAGTCTCAGAACGCAccttcgcacccacaccggggagaagccatttgagtgcacagtttgcaggCAGAGATTCACTCAAAGTGGAAGTCTCAGAACGCATCTTcggatccacaccggggagaagcctttcgagtgctcGGTTTGCAAAATGAAGTTCACTGTAAGTGGAAGTCTCAGAACGCAccttcgcacccacaccggggagaagcctttcgagtgcacagtttgcaagaaGAAGTTCAATGAAAGTGGAGATCTTAGAAAGCACCTTCgcatccacaccggggagaagcctttcgagtgcacagtttgcaggCAGAAGTTCTCTGATAGTGGTAATTTCAGAAGGCAccttcgcacccacaccggggagaagcctttcgagtgcacagtttgcaagaaGAAGTTCAATGAAAGAAGTAATCTCAAAAAGCACCTTCgcatccacaccggggagaagccttacgAGTGCGTTTAA
Protein Sequence: MSHEREPRHRPGGSSASVRAPRGACNKEKRLECPVCEKQFALRSQLETHLRTHTGGKPFECAVCKQKFTVSGSLRRHLRVHTGENPFECPVCKTKFNRNENLEVHLRTHTGEKPFECTVCRQRFTQSGSLRTHLRTHTGEKPFECTVCRQRFTQSGSLRTHLRIHTGEKPFECSVCKMKFTVSGSLRTHLRTHTGEKPFECTVCKKKFNESGDLRKHLRIHTGEKPFECTVCRQKFSDSGNFRRHLRTHTGEKPFECTVCKKKFNERSNLKKHLRIHTGEKPYECV

Sequence clustering based on sequence similarity using MMseqs2