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 11 0.0027 1.1 9.5 0.0 21 44 14 37 3 41 0.87

2 11 0.0025 0.97 9.6 0.0 21 47 42 68 37 73 0.86

3 11 0.0026 1 9.5 0.0 21 47 70 96 66 101 0.86

4 11 0.0045 1.8 8.8 0.0 21 44 98 121 93 125 0.89

5 11 0.0021 0.82 9.9 0.0 21 47 126 152 122 157 0.86

6 11 0.0026 1 9.5 0.0 21 47 154 180 150 185 0.86

7 11 0.0056 2.2 8.5 0.0 21 44 182 205 178 209 0.90

8 11 0.0047 1.9 8.7 0.0 21 44 210 233 206 237 0.90

9 11 0.0038 1.5 9.0 0.0 21 44 238 261 234 265 0.90

10 11 0.0082 3.2 8.0 0.0 21 43 266 288 261 293 0.91

11 11 0.0018 0.7 10.1 0.0 21 44 294 317 291 327 0.84

#	of	c-Evalue	i-Evalue	score	hmm coord from	hmm coord to	ali coord from	ali coord to	env coord from	env coord to	acc
1	11	0.0027	1.1	9.5	21	44	14	37	3	41	0.87
2	11	0.0025	0.97	9.6	21	47	42	68	37	73	0.86
3	11	0.0026	1	9.5	21	47	70	96	66	101	0.86
4	11	0.0045	1.8	8.8	21	44	98	121	93	125	0.89
5	11	0.0021	0.82	9.9	21	47	126	152	122	157	0.86
6	11	0.0026	1	9.5	21	47	154	180	150	185	0.86
7	11	0.0056	2.2	8.5	21	44	182	205	178	209	0.90
8	11	0.0047	1.9	8.7	21	44	210	233	206	237	0.90
9	11	0.0038	1.5	9.0	21	44	238	261	234	265	0.90
10	11	0.0082	3.2	8.0	21	43	266	288	261	293	0.91
11	11	0.0018	0.7	10.1	21	44	294	317	291	327	0.84

Coding Sequence: ATGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCACGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCATGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCATGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCATGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCACGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCATGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCACGTCAGGCAATTTGAAAATACATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCATGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCACGTCAGGCAATTTGAAAATGCATACTAGGATCCACACAGGAGAAAAGCCATACAAATGTGACATCTGCGATTCTACATTCAGCCAGTCAGGCCAATTGAAAAAGCATAATATTACCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGATGCTACATTCACCGAGTCAAGCAATTTGAAAAGGCTTAATAGGATCCACACAGGAGTGAAACCATATAAATGTGATATATGTTTGAAAAGACATTCACTGCGTCAGGCGGTTTGA
Protein Sequence: MSGNLKMHTRIHTGEKPYKCDICDATFTTSGNLKMHTRIHTGEKPYKCDICDATFTMSGNLKMHTRIHTGEKPYKCDICDATFTMSGNLKMHTRIHTGEKPYKCDICDATFTMSGNLKMHTRIHTGEKPYKCDICDATFTTSGNLKMHTRIHTGEKPYKCDICDATFTMSGNLKMHTRIHTGEKPYKCDICDATFTTSGNLKIHTRIHTGEKPYKCDICDATFTMSGNLKMHTRIHTGEKPYKCDICDATFTTSGNLKMHTRIHTGEKPYKCDICDSTFSQSGQLKKHNITHTGEKPYKCDICDATFTESSNLKRLNRIHTGVKPYKCDICLKRHSLRQAV

Sequence clustering based on sequence similarity using MMseqs2