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 6 0.0031 1.4 9.9 0.0 21 51 94 124 86 125 0.86

2 6 0.019 8.8 7.4 0.0 21 52 122 153 118 155 0.87

3 6 2.2 1e+03 0.8 0.2 38 47 195 204 191 209 0.83

4 6 5.4 2.5e+03 -0.4 0.0 21 43 206 228 202 239 0.74

5 6 0.07 32 5.6 0.0 11 44 251 285 246 289 0.78

6 6 0.0043 1.9 9.5 0.1 21 52 290 321 282 323 0.85

#	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	6	0.0031	1.4	9.9	0.0	21	51	94	124	86	125	0.86
2	6	0.019	8.8	7.4	0.0	21	52	122	153	118	155	0.87
3	6	2.2	1e+03	0.8	0.2	38	47	195	204	191	209	0.83
4	6	5.4	2.5e+03	-0.4	0.0	21	43	206	228	202	239	0.74
5	6	0.07	32	5.6	0.0	11	44	251	285	246	289	0.78
6	6	0.0043	1.9	9.5	0.1	21	52	290	321	282	323	0.85

Coding Sequence: ATGGAACAAGTCACAGTCAAGTCAGAAATTAATTACAATCTTTTGCAAAGTCCATGCCGGATTGAAATTAAAACGGAGCCAATGGAAGACGTCGACGTCAAATTGGAAGAGTTACATCATTCGGTTGACATTAAGGACGAGACCGCAACCTCTTTTAATAAACTACAACTCAAAAAGCACATAAAAGTTCCTGGTGGTCCAAAAATTTATGAGTGCGGATTTTGTGACTATAAATCGTCAAAGAGGGAAAATTGCAAAGTTCACTTAAGGATCCATACAGGGGAGAAGCCCTTTACGTGTGCAGTTTGCGACTTTAAATTTTCAAGAAAAACGGATTTAAAAAGACATTTAAAGATACATTCGGGTGAGAAACCCTTCAAATGTAAAATTTGTGGAAATATGTTTTCACGGAAAGGTAATTTAAAAGTTCATTTAAGGGTCCATACGGGCGAAAAACCCTTTGCTTGTTTGTACTGTGACTATAAATCTTCCAAAAAACGAACGTTAAAAATGCACTCGACAATTCATACCGGGCTGAAAACTTTTTCTGGCGATGTTAAGGGTTACAAATCTTCACCAAAGAGAAATGTAAAACGGCATTTAAGGGTGAAAACTAGCGAGAAATCTTTTTCGTGTGAAATCTGCGGGAATATGTTTGCATATAAGTCATACTTAAAGGTTCACTTTAGGACCCATACGGGGGAGAAGCCCTACGCATGTGTACACTGCGACTACAAATCCGCAACAAAGGGAACTTTAAAAATGCATTCGAGGATTCATACCGGTGAAAAACCATTTGCTTGTGATATTTGCGACTATAGAAGTTCACAAAAGTACGATATGAAGGAACACATCAGAACCCATACTGGGGAGAAGCCCTTCGCCTGTGATATCTGTGGGTACAAATCTTCAACGAAAAGATATTTAAAACGTCATTTAAAGATTCATTCAGGCGAAAAGCCCTTTCCATGTGAAGTTTGTGACAATAAATTTGCAAGTAAAGCATCTTTAAAAGGTCACGCCAGGATTCATACAAGCGAACCACCCATGTGA
Protein Sequence: MEQVTVKSEINYNLLQSPCRIEIKTEPMEDVDVKLEELHHSVDIKDETATSFNKLQLKKHIKVPGGPKIYECGFCDYKSSKRENCKVHLRIHTGEKPFTCAVCDFKFSRKTDLKRHLKIHSGEKPFKCKICGNMFSRKGNLKVHLRVHTGEKPFACLYCDYKSSKKRTLKMHSTIHTGLKTFSGDVKGYKSSPKRNVKRHLRVKTSEKSFSCEICGNMFAYKSYLKVHFRTHTGEKPYACVHCDYKSATKGTLKMHSRIHTGEKPFACDICDYRSSQKYDMKEHIRTHTGEKPFACDICGYKSSTKRYLKRHLKIHSGEKPFPCEVCDNKFASKASLKGHARIHTSEPPM

Sequence clustering based on sequence similarity using MMseqs2