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 0.054 7.1e+02 1.0 0.0 20 33 20 33 15 54 0.74

2 6 0.002 26 5.6 0.0 21 45 57 81 43 89 0.85

3 6 0.044 5.8e+02 1.3 0.1 21 43 85 107 80 115 0.83

4 6 0.043 5.7e+02 1.3 0.1 21 43 113 135 106 141 0.82

5 6 0.00015 2 9.2 0.1 21 44 141 164 133 168 0.89

6 6 0.00023 3.1 8.5 0.1 21 45 169 193 164 200 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	6	0.054	7.1e+02	1.0	0.0	20	33	20	33	15	54	0.74
2	6	0.002	26	5.6	0.0	21	45	57	81	43	89	0.85
3	6	0.044	5.8e+02	1.3	0.1	21	43	85	107	80	115	0.83
4	6	0.043	5.7e+02	1.3	0.1	21	43	113	135	106	141	0.82
5	6	0.00015	2	9.2	0.1	21	44	141	164	133	168	0.89
6	6	0.00023	3.1	8.5	0.1	21	45	169	193	164	200	0.86

Coding Sequence: ATGTGCGATAAGTCATTTGATGTTAGCTGTCATCTGACTGTACACCAGCGGACGCATAAGGGTGAAAAACCAGATCACTGCGATGTATGTGATATGACGTTCTCTGTAAGACAAAATATGGCGTTCACTCAAAAAAACAATCTGACCAGAGACCAGCGGATGCATACAGGCGAAAAACCATACCTATGCGGCGTGTGTGATATGGCGTTCACTCAAAAAACCAGTCTGACCAGACACCAGCGGACGCATACAGGTGAAAAACCATACCTATGCGGCGTGTGTGATATGGCGTTCACTCAAAAAACCAGTCTGACCTGTCATCAGCGGACGCATACAGGTGAAAAACCATACCTATGCGGCGTGTGTGATATGGCGTTTACTCAAAAAACCAGTCTGACCTGTCATCAGCGGACGCATACAGGTGAAAAACCGTACGTATGCGGCGTGTGTGATATGGCGTTTACTCAAAAAACCAATCTGACCAGACACCAGCGGACGCATACAGGTGAAAAACCGTACCGATGTGACGTGTGTGATAAGTCGTTCTCTCAAAAAAACAATCTGACCAGACACCAGCGGACGCATACGGGTGGAAAACCGTACTGA
Protein Sequence: MCDKSFDVSCHLTVHQRTHKGEKPDHCDVCDMTFSVRQNMAFTQKNNLTRDQRMHTGEKPYLCGVCDMAFTQKTSLTRHQRTHTGEKPYLCGVCDMAFTQKTSLTCHQRTHTGEKPYLCGVCDMAFTQKTSLTCHQRTHTGEKPYVCGVCDMAFTQKTNLTRHQRTHTGEKPYRCDVCDKSFSQKNNLTRHQRTHTGGKPY

Sequence clustering based on sequence similarity using MMseqs2