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 0.0041 44 5.5 0.1 19 52 42 75 28 77 0.83

2 10 0.15 1.6e+03 0.5 0.1 22 44 73 95 70 102 0.86

3 10 3.6e-05 0.38 12.1 0.2 22 44 101 123 92 131 0.86

4 10 0.026 2.8e+02 2.9 0.1 21 44 128 151 123 159 0.85

5 10 0.059 6.3e+02 1.8 0.1 11 43 145 178 142 182 0.78

6 10 0.0055 58 5.1 0.1 18 47 180 210 174 215 0.80

7 10 0.0079 84 4.6 0.1 21 47 212 238 208 245 0.84

8 10 0.78 8.3e+03 -1.8 0.2 21 43 240 262 232 266 0.74

9 10 0.00023 2.4 9.5 0.1 21 47 296 322 288 328 0.84

10 10 0.15 1.6e+03 0.5 0.0 22 44 325 347 319 350 0.79

#	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	0.0041	44	5.5	0.1	19	52	42	75	28	77	0.83
2	10	0.15	1.6e+03	0.5	0.1	22	44	73	95	70	102	0.86
3	10	3.6e-05	0.38	12.1	0.2	22	44	101	123	92	131	0.86
4	10	0.026	2.8e+02	2.9	0.1	21	44	128	151	123	159	0.85
5	10	0.059	6.3e+02	1.8	0.1	11	43	145	178	142	182	0.78
6	10	0.0055	58	5.1	0.1	18	47	180	210	174	215	0.80
7	10	0.0079	84	4.6	0.1	21	47	212	238	208	245	0.84
8	10	0.78	8.3e+03	-1.8	0.2	21	43	240	262	232	266	0.74
9	10	0.00023	2.4	9.5	0.1	21	47	296	322	288	328	0.84
10	10	0.15	1.6e+03	0.5	0.0	22	44	325	347	319	350	0.79

Coding Sequence: ATGATTCTAGCGTTCAATAGCCTGAGCAGTTCACTTTATTTCTGTTGTGTTTCAGAGGGAGGGCTCGCATCAGAGCGCGGGGCTCGAGCCAGCCCTAGGGAGCCCCCAGCCAGGACAGACCCCTCGGGCTCCACCGACCCGACCTGCTGTCGTGTATGTGGCAAGCAGTTTAAGAAAGCGGGCGCGTTGAAGGTCCATATGCGGCTACACACAGGAGAAAAACCCTACCCCTGCAACACGTGCGACAAGCGATTTAATCAGTTGATCCATCTAAAAAGACATGAACAAGTTCACATGGAGCAAAAGCCTTTCACCTGCCCAATATGTGATAAACAGTTCACGCAGCCCAGCGACTTGAAGAGACATGGAAGGATTCACACAGGAGAGAGACCATACAAGTGCGATATCTGTCATAAAGGGTTCACACAAATGGGTACGTTGAAGGCGCACGCGCGGGTTCACACAGGAGAGAGACCTTACGCCTGCGAATTGTGTGAGAAACGGTTCGCGCAACAGTATCACTTAAAGGTCCATGAACGTAGTCACACGGGAGAAAAACCCTATAGTTGTGAGATGTGTGAAAAACGGTTCACGAAAGCGGTCGATTTACAAAGACACGTACGCGTGCACACAGGAGAGAAACCATTCTCCTGTAGCATATGTGAAAAGGAGTTCTCAGATGTATTGTATTTACGACGTCATGAGCGGATACACACGGGGGAAAAACCTTATGCGTGCGGAACGTGTGAGAGAGAGTTTACAGAATGGGGCAGTTTGAAGAGACACGAGCGAGTTCACACGGGGGACAGGCCCTACCCGTGTGAAACATGTGGGAAGCGGTTTAAAATACTGCACGCTTTAAAAATACATAACCGGATTCACACCGGAGAAAAACCATATTCTTGTCCGATTTGTGAGAAGAGGTTTATAGACTCCAATAGTATGAGGAAGCACGAGCGGATTCACACAGGTGACAAACCATACTCTTGTGACATATGCCTAAAGAATTTCACTGAAATGGGCAGTTTGAAGAAACATTCTCGACTTCACACGTGA
Protein Sequence: MILAFNSLSSSLYFCCVSEGGLASERGARASPREPPARTDPSGSTDPTCCRVCGKQFKKAGALKVHMRLHTGEKPYPCNTCDKRFNQLIHLKRHEQVHMEQKPFTCPICDKQFTQPSDLKRHGRIHTGERPYKCDICHKGFTQMGTLKAHARVHTGERPYACELCEKRFAQQYHLKVHERSHTGEKPYSCEMCEKRFTKAVDLQRHVRVHTGEKPFSCSICEKEFSDVLYLRRHERIHTGEKPYACGTCEREFTEWGSLKRHERVHTGDRPYPCETCGKRFKILHALKIHNRIHTGEKPYSCPICEKRFIDSNSMRKHERIHTGDKPYSCDICLKNFTEMGSLKKHSRLHT

Sequence clustering based on sequence similarity using MMseqs2