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 0.0018 13 7.0 0.7 26 52 27 53 19 55 0.91

2 10 0.29 2e+03 -0.1 0.0 24 45 53 74 51 81 0.86

3 10 0.041 2.9e+02 2.6 0.1 24 49 86 111 75 114 0.78

4 10 8.7e-05 0.61 11.2 0.0 21 46 111 136 107 141 0.92

5 10 0.0088 62 4.8 0.1 22 45 140 163 136 166 0.85

6 10 0.00029 2 9.5 0.1 21 46 167 192 164 197 0.91

7 10 0.0061 43 5.3 0.1 22 45 196 219 193 222 0.88

8 10 0.00045 3.1 8.9 0.0 21 46 223 248 219 252 0.91

9 10 0.018 1.3e+02 3.8 0.1 26 48 256 278 248 284 0.86

10 10 0.39 2.7e+03 -0.5 0.1 25 43 311 329 303 333 0.80

#	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	0.0018	13	7.0	0.7	26	52	27	53	19	55	0.91
2	10	0.29	2e+03	-0.1	0.0	24	45	53	74	51	81	0.86
3	10	0.041	2.9e+02	2.6	0.1	24	49	86	111	75	114	0.78
4	10	8.7e-05	0.61	11.2	0.0	21	46	111	136	107	141	0.92
5	10	0.0088	62	4.8	0.1	22	45	140	163	136	166	0.85
6	10	0.00029	2	9.5	0.1	21	46	167	192	164	197	0.91
7	10	0.0061	43	5.3	0.1	22	45	196	219	193	222	0.88
8	10	0.00045	3.1	8.9	0.0	21	46	223	248	219	252	0.91
9	10	0.018	1.3e+02	3.8	0.1	26	48	256	278	248	284	0.86
10	10	0.39	2.7e+03	-0.5	0.1	25	43	311	329	303	333	0.80

Coding Sequence: ATGGAGAGAAATTCTAGAAGCAGTTTCCATACAGAAGAAGTAATGCAATTCCATCCCCAAGCCTCATCTGAATTATTCCCATGTAGCATCTGTTCAGAGATATGCCACGAAGAACATGAGCTACACCGACACATGCAAAATCACATGTTTATTAAACCTTACAAGTGCAACAAGTGTGTGGCAGCATTTCCGTCTTCAAAAATGCTCAACAATCATATTATAAAAAATCACCCAGAAGAGCAGCAACACACTCGCCAGTTTGCTTGTAACTTCTGTGAAAGATCGTTCACTCAAAAAAGCAATTTAAAAGCTCACGTTAAAATTCACACAGGCGAAAAACCATTCTCTTGTTCGCTATGCTCGAGAAAGTTCACCCAATCCAGCAACCTTAAAGAACACTTGAAGATTCATTCGGGAGAACGCGCACACCAATGTACGCTGTGTCCGAGAGCATTCACCCAATCTAGCAACCTTAAGGAACATTTCAAAACGCATACCGGCGAAAAGCCGTTCTCCTGTTCCTTGTGTTCGAGAAGGTTCACCCAATCGAGCAATCTCAAAGAACACATCAAGATACATACTGGAGAGAAGAATCATGCATGCTCTTTATGCCCCAGAGCGTTCACGCAGTCGAGCAACCTGAAGGAGCACTTCAAAACGCACACCGGAGAAAAACCGTTCTCGTGTTCACTGTGTCCTAGGAAGTTCACCCAATCTAGCAATCTTAAAGAACACATTAAAATTCACTCGAACCAACTCGAACATGTCTGCGCGATTTGCGATAAAAGTTTCGTTCAGCTCAGCAATCTGAAATCGCACGTAAGCGTTGTTCATCGGGGAAACTCGGCCGTAACCGGGGCAGCCAGTTGCGAATCGTCGGTCAAGTCGGAGTCGTTCCCGGAACACGATTGTTCGATGAAGAGTAAGAATAAAGCATGTGCAGTGTGTAAACGAGCGTTTTTACGGTCGGTAAATCTCAAAAAACAAATCGCAAGCACAGATTGTAAACATATTGATGCATAG
Protein Sequence: MERNSRSSFHTEEVMQFHPQASSELFPCSICSEICHEEHELHRHMQNHMFIKPYKCNKCVAAFPSSKMLNNHIIKNHPEEQQHTRQFACNFCERSFTQKSNLKAHVKIHTGEKPFSCSLCSRKFTQSSNLKEHLKIHSGERAHQCTLCPRAFTQSSNLKEHFKTHTGEKPFSCSLCSRRFTQSSNLKEHIKIHTGEKNHACSLCPRAFTQSSNLKEHFKTHTGEKPFSCSLCPRKFTQSSNLKEHIKIHSNQLEHVCAICDKSFVQLSNLKSHVSVVHRGNSAVTGAASCESSVKSESFPEHDCSMKSKNKACAVCKRAFLRSVNLKKQIASTDCKHIDA

Sequence clustering based on sequence similarity using MMseqs2