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 7.8 3.5e+03 -0.9 0.0 26 45 58 77 51 82 0.73

2 9 0.57 2.6e+02 2.7 0.1 22 47 82 107 78 112 0.80

3 9 0.035 16 6.6 0.1 21 46 109 134 105 140 0.83

4 9 0.026 12 7.0 0.0 23 52 139 168 132 169 0.86

5 9 0.25 1.1e+02 3.8 0.1 23 45 167 189 163 193 0.90

6 9 0.077 35 5.5 0.0 21 47 193 219 189 224 0.78

7 9 0.023 10 7.1 0.1 21 50 221 250 218 254 0.84

8 9 0.39 1.7e+02 3.2 0.1 23 45 251 273 245 279 0.84

9 9 0.056 25 5.9 0.0 21 45 305 329 297 332 0.86

#	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	7.8	3.5e+03	-0.9	0.0	26	45	58	77	51	82	0.73
2	9	0.57	2.6e+02	2.7	0.1	22	47	82	107	78	112	0.80
3	9	0.035	16	6.6	0.1	21	46	109	134	105	140	0.83
4	9	0.026	12	7.0	0.0	23	52	139	168	132	169	0.86
5	9	0.25	1.1e+02	3.8	0.1	23	45	167	189	163	193	0.90
6	9	0.077	35	5.5	0.0	21	47	193	219	189	224	0.78
7	9	0.023	10	7.1	0.1	21	50	221	250	218	254	0.84
8	9	0.39	1.7e+02	3.2	0.1	23	45	251	273	245	279	0.84
9	9	0.056	25	5.9	0.0	21	45	305	329	297	332	0.86

Coding Sequence: ATGGTAGCTTTGTTACAGGGTACTCGATCGCATTCAAGTAGCCGTTATCAAATTAAGACGGAAGAAGTAGAACTGAAGTCTGAAGATTTGCACAATCATTCCAGTAACATAAAAGAAGGGACTTCTCTTCACCTTCGGAAAACAAATTTTAAATCAGGCAATAAATCGTTTAAATGTGGAATTTGTGACTACAAAAGTGCACGTAAGGGAAATTTAAAACTCCATTTAAAAACTCATACAGGCGAGAAATCGTTCCAATGTGAAATTTGTAACTACAAATGTGCACTGAAGGGAAATTTAAGAAGTCACTTAAAAACTCATACAGGGGAAAAACCGTTTGAGTGTGAAATTTGTGGCTACAAATGTGCACATAAGGAAAATTTAAAACGGCATTTTAAAAGTCATACAGATACGAAACCGTTTCAATGCGAAATTTGTGACTATAAATGTGCACAAATGGTAAATTTAAAAATGCATTTAAAAATTCATGCCGGGGTGAAGCCGTTCCACTGTGAAATTTGTAACTACAAATGTGCACAAAAGGCAAATTTAAACGATCATTTAAAAACTCATACAGGCGAGAAACCGTTCCAGTGTGAAATTTGTGATTACAAATGTGCACGCAAGGGAAATTTAAAAAGTCACTTAAAAACTCATACCGGGGAAAAACCGTTTGAGTGTGAAATTTGTGACTACAAATGTGCACACAAGGAAAATTTAAAAAGGCATGTAAAAAGTCATACAGATACGAAACCGTTTCAATGTGAAATTTGTGACTACAAATGTGCAGCGAAGGGAAATTTCAAAAGGCATTTAAACAGTCACACAAAAAAGAAAGCGTTTCAGTGTGAAATTTGTGGCTACAAATGTGCAGAGAAGGTCAATTTAAAAATTCATTTAAGAACTCATTCGGGCGAGAAGCCGTTTCATTGTGAAATTTGTGACTACAAAAGTGCACAGAAAGGAAATTTAAAAATTCATTTAAAAACTCATACAAGCTAA
Protein Sequence: MVALLQGTRSHSSSRYQIKTEEVELKSEDLHNHSSNIKEGTSLHLRKTNFKSGNKSFKCGICDYKSARKGNLKLHLKTHTGEKSFQCEICNYKCALKGNLRSHLKTHTGEKPFECEICGYKCAHKENLKRHFKSHTDTKPFQCEICDYKCAQMVNLKMHLKIHAGVKPFHCEICNYKCAQKANLNDHLKTHTGEKPFQCEICDYKCARKGNLKSHLKTHTGEKPFECEICDYKCAHKENLKRHVKSHTDTKPFQCEICDYKCAAKGNFKRHLNSHTKKKAFQCEICGYKCAEKVNLKIHLRTHSGEKPFHCEICDYKSAQKGNLKIHLKTHTS

Sequence clustering based on sequence similarity using MMseqs2