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 10 0.022 1.7 8.8 0.1 21 46 8 33 4 39 0.86

2 10 1.8 1.4e+02 2.6 0.1 22 46 37 61 33 68 0.82

3 10 1.5 1.2e+02 2.9 0.4 21 44 64 87 60 91 0.87

4 10 0.018 1.4 9.1 0.1 21 46 92 117 88 123 0.86

5 10 0.2 16 5.7 0.3 21 44 120 143 116 148 0.90

6 10 0.35 28 4.9 0.1 22 46 149 173 144 180 0.82

7 10 1.5 1.2e+02 2.9 0.2 22 44 177 199 172 203 0.86

8 10 0.47 37 4.5 0.1 21 45 204 228 196 235 0.84

9 10 0.28 22 5.2 0.1 21 46 232 257 228 263 0.84

10 10 0.0026 0.2 11.8 0.3 21 45 260 284 256 286 0.91

#	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	10	0.022	1.7	8.8	0.1	21	46	8	33	4	39	0.86
2	10	1.8	1.4e+02	2.6	0.1	22	46	37	61	33	68	0.82
3	10	1.5	1.2e+02	2.9	0.4	21	44	64	87	60	91	0.87
4	10	0.018	1.4	9.1	0.1	21	46	92	117	88	123	0.86
5	10	0.2	16	5.7	0.3	21	44	120	143	116	148	0.90
6	10	0.35	28	4.9	0.1	22	46	149	173	144	180	0.82
7	10	1.5	1.2e+02	2.9	0.2	22	44	177	199	172	203	0.86
8	10	0.47	37	4.5	0.1	21	45	204	228	196	235	0.84
9	10	0.28	22	5.2	0.1	21	46	232	257	228	263	0.84
10	10	0.0026	0.2	11.8	0.3	21	45	260	284	256	286	0.91

Coding Sequence: ATGCATATTAGAACTCATACTGGTGAAAAACCTTGCAGATGTGAAATTTGTTTAAAATGTTTCATAGGTTCTGGTGATTTAAAAAGGCATATTACAACCCACACTGGTAAAAAACCTTTCAGATGTGAAATTTGTTCAAAATGTTTCATACGTTCTGGTGATTTAAAAAGTCATATTAGAACACACACTGGTGAAAAACCGTTTAGATGTGAAATTTGTTCAAAATGTTTTCTAAACTCCTGTTATTTAAAAAATCATATTAGAACTCACACAGGTGAAAAACCTTTTCAATGTGAAATATGTTCAAAATGTTTTAATATTTCCGGTTCTTTAAAAAGGCATCTTAGAACTCACACTGGTGAAAAACCTTTCAGATGTGAAATTTGTTCAAAATGTTTCGCTCACGAAAATAACTTAAAACAGCATATTAGAACTCACACTGGTGAAAAATCTTTTAGATGTGAAATTTGTTCAAAATGTTTCTTACGTTCTGGTGATTTAAAAAGGCATATTACAACTCACACTGGTAAAAAACCTTTCAGATGTGAAATTTGTTTAAAATGTTTCATACGTTCTGCTGATTTAAAAAGTCATATTAGAACACACACTGGTGAAAAACCGTTTAGATGTGAAATTTGTTCAAAATCTTTTCTAAACTCTTGTGATTTAAAAAATCATATTAGAACTCACACAGGTGAAAAACCTTTTCAATGTGAAATTTGTTCAAAATGTTTTAATATTTTCGGTTCTTTAAAAAGGCATCTTAGAACTCACACTGGTGAAAAACCTTTCAGATGTGAAATTTGTTCAAAGTGTTTCACACAAAAGAGTAACTTAAAACGGCATATTAATAGTTGTGACCGTAAAACGTCCTAA
Protein Sequence: MHIRTHTGEKPCRCEICLKCFIGSGDLKRHITTHTGKKPFRCEICSKCFIRSGDLKSHIRTHTGEKPFRCEICSKCFLNSCYLKNHIRTHTGEKPFQCEICSKCFNISGSLKRHLRTHTGEKPFRCEICSKCFAHENNLKQHIRTHTGEKSFRCEICSKCFLRSGDLKRHITTHTGKKPFRCEICLKCFIRSADLKSHIRTHTGEKPFRCEICSKSFLNSCDLKNHIRTHTGEKPFQCEICSKCFNIFGSLKRHLRTHTGEKPFRCEICSKCFTQKSNLKRHINSCDRKTS

Sequence clustering based on sequence similarity using MMseqs2