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 0.92 3.6e+02 1.4 1.2 23 46 90 113 86 115 0.85

2 6 0.13 50 4.2 0.0 22 49 117 144 112 147 0.86

3 6 5.9e-05 0.023 14.8 0.0 21 52 144 175 141 177 0.87

4 6 0.047 19 5.5 0.2 21 45 172 196 168 200 0.89

5 6 0.036 14 5.9 0.0 21 45 200 224 196 227 0.90

6 6 0.0012 0.46 10.7 0.0 21 45 228 252 224 255 0.91

#	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	0.92	3.6e+02	1.4	1.2	23	46	90	113	86	115	0.85
2	6	0.13	50	4.2	0.0	22	49	117	144	112	147	0.86
3	6	5.9e-05	0.023	14.8	0.0	21	52	144	175	141	177	0.87
4	6	0.047	19	5.5	0.2	21	45	172	196	168	200	0.89
5	6	0.036	14	5.9	0.0	21	45	200	224	196	227	0.90
6	6	0.0012	0.46	10.7	0.0	21	45	228	252	224	255	0.91

Coding Sequence: ATGGATTTTGAAATCAAAAAGGAAATGATGGAGGATGTCGATGAACTTCTATCTCAAATCTTGATGAATGAAGAAGATATTGTTGATTTCGATATCAAAGAGGAGCCGCCCTTTACTTACCCAGATGGATTGAAAGAAGATATTGACTTGAACATTAAAGAGGAGGACGAAGTTTTCGTGGGAGGTGGTTCAAATACGGACGAAATCGATGGAGTGGAAAGCAGAGAAGTGCCTTCCGAGGCAATTATTAAAACTCATACTGGAGGGAAGCCTCACAGTTGCCATGTTTGTGATCGCAGGTTCAGCTATAGGAGTAGTTTAAGAAGACACATTAGGATTCATACCGGAGAAATGCCTTACGACTGCTATTTATGTGATGCCAAGTTCAACCAAAAAGTTCATCTAACAACACACTTAAGGATTCACACCGGAGAAAAGCCTTTTATGTGCAAAATATGCGATGCCAAGTTTAACGATGCAAGTAATTTAAAAAGACACCTTAGGACTCATACTGGAGAAAAGCCTTACGTGTGCGCAGTTTGCGACGCCAGGTTCAGCCAAAGAGCTCATCTAACGACACACTTAAGGACTCACACTGGAGAAAAACCTTATAAATGTAATCTGTGCGACACCTTGTTCAGCCATGGCAGTAGTTTAAAAAGACACCTTAGGACTCATACTGGAGAAATGCCGTATAACTGCGGCATGTGCGAAGCCAAGTTCAACGATGCAAGTAATTTAAAGAGGCACTTAAAGACTCATTCTGGAGAAGAAATAAGTCAAGCGCCGCAAGAAGAAAAGGAATGCCACAAAGATGAGTAA
Protein Sequence: MDFEIKKEMMEDVDELLSQILMNEEDIVDFDIKEEPPFTYPDGLKEDIDLNIKEEDEVFVGGGSNTDEIDGVESREVPSEAIIKTHTGGKPHSCHVCDRRFSYRSSLRRHIRIHTGEMPYDCYLCDAKFNQKVHLTTHLRIHTGEKPFMCKICDAKFNDASNLKRHLRTHTGEKPYVCAVCDARFSQRAHLTTHLRTHTGEKPYKCNLCDTLFSHGSSLKRHLRTHTGEMPYNCGMCEAKFNDASNLKRHLKTHSGEEISQAPQEEKECHKDE

Sequence clustering based on sequence similarity using MMseqs2