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 0.33 26 5.0 0.3 23 46 8 31 2 38 0.76

2 10 0.17 13 5.9 0.0 26 44 39 57 31 61 0.88

3 10 0.047 3.7 7.7 0.2 21 52 62 93 58 94 0.89

4 10 0.006 0.48 10.6 0.1 22 48 91 117 88 121 0.85

5 10 2.4 1.9e+02 2.3 0.0 21 44 118 141 114 145 0.86

6 10 0.0022 0.18 12.0 0.1 21 46 146 171 142 177 0.87

7 10 0.87 69 3.7 0.1 21 44 174 197 170 201 0.88

8 10 0.02 1.6 8.9 0.3 21 44 202 225 198 230 0.91

9 10 0.047 3.7 7.7 0.1 21 44 230 253 225 257 0.89

10 10 0.2 16 5.7 0.3 21 45 258 282 254 290 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	10	0.33	26	5.0	0.3	23	46	8	31	2	38	0.76
2	10	0.17	13	5.9	0.0	26	44	39	57	31	61	0.88
3	10	0.047	3.7	7.7	0.2	21	52	62	93	58	94	0.89
4	10	0.006	0.48	10.6	0.1	22	48	91	117	88	121	0.85
5	10	2.4	1.9e+02	2.3	0.0	21	44	118	141	114	145	0.86
6	10	0.0022	0.18	12.0	0.1	21	46	146	171	142	177	0.87
7	10	0.87	69	3.7	0.1	21	44	174	197	170	201	0.88
8	10	0.02	1.6	8.9	0.3	21	44	202	225	198	230	0.91
9	10	0.047	3.7	7.7	0.1	21	44	230	253	225	257	0.89
10	10	0.2	16	5.7	0.3	21	45	258	282	254	290	0.86

Coding Sequence: ATGAGGACTAGCAGAGATCAAAAATCTTTTAAATGTGAAATTTGTTTAAAATGTTTCACACGACAAAGCAACTTAAAACAGCATATTAAAATTCACACTGACCAAAAATCATTTAAATGTAAAATTTGTTCGAAATCTTTCACACAATCTGTTAATTTAAAAACTCATATTGCAACTCACAGTGGCGAAAAACCTTTCAGATGTGAAATTTGTTCAAAATGTTTCACACAAAAAGTGAGCTTAAAACAGCATATTCAAATCCACACTAACCAAAAACCTTTTAAATGTAAAATTTGTTCGAAATGTTTCACACAATCTGTTAATTTAAAAACTCATATTACAATTCACACCGGTGAAAAACCTTTCAGATGTGAAATTTGTTTAAAATATTTCACTCATAAAGGTGATTTAAAACAACATATTAAAACTCACACTAACGAAAAACCTTTTAAATGTGAAACTTGTTCAAAATGTTTCACACAATCCGGTAATTTAAAAAGGCATATTAGAACTCACACTGACGAAAAGCCTTATAAGTGTAAAATTTGTTCAAAATGTTTTATAGAATCCGGTAAATTAAAAACGCATATTGCAACTCATACTGGCGAAAAACCTTTCAGATGTGAAATTTGTTCAAAATGTTTTACACAACAAAGTAACTTAAAACAGCATATTAGAACTCACACTGACGAGAAACCTTTTAAATGTAAAATTTGTTTGAAATGTTTCGCACAATCCGGTCATTTAAAAATGCATATTAGAACTCACACTGGTGAAAAACCTTTCAGATGTGAAATTTGTTCAAAATGTTTCACACAAAAAAGTAGTTTAAAACAGCATATTATTAAAATTCACACCAACGAAAAACCTTTTAAATGTAGTTAA
Protein Sequence: MRTSRDQKSFKCEICLKCFTRQSNLKQHIKIHTDQKSFKCKICSKSFTQSVNLKTHIATHSGEKPFRCEICSKCFTQKVSLKQHIQIHTNQKPFKCKICSKCFTQSVNLKTHITIHTGEKPFRCEICLKYFTHKGDLKQHIKTHTNEKPFKCETCSKCFTQSGNLKRHIRTHTDEKPYKCKICSKCFIESGKLKTHIATHTGEKPFRCEICSKCFTQQSNLKQHIRTHTDEKPFKCKICLKCFAQSGHLKMHIRTHTGEKPFRCEICSKCFTQKSSLKQHIIKIHTNEKPFKCS

Sequence clustering based on sequence similarity using MMseqs2