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 9 0.00015 0.33 11.9 0.1 21 45 77 101 66 104 0.83

2 9 0.059 1.3e+02 3.6 0.2 22 43 105 126 101 130 0.77

3 9 0.00015 0.32 12.0 0.0 20 52 131 163 124 165 0.84

4 9 0.19 4e+02 2.1 0.0 21 44 160 183 157 192 0.77

5 9 0.0019 4.1 8.4 0.1 26 52 193 219 188 221 0.85

6 9 0.42 9.1e+02 0.9 0.0 21 51 216 246 212 248 0.83

7 9 0.04 88 4.2 0.1 21 44 244 267 236 272 0.90

8 9 0.022 48 5.0 0.1 21 46 272 297 268 303 0.89

9 9 1.3 2.8e+03 -0.6 0.0 24 48 303 327 299 330 0.82

#	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	9	0.00015	0.33	11.9	0.1	21	45	77	101	66	104	0.83
2	9	0.059	1.3e+02	3.6	0.2	22	43	105	126	101	130	0.77
3	9	0.00015	0.32	12.0	0.0	20	52	131	163	124	165	0.84
4	9	0.19	4e+02	2.1	0.0	21	44	160	183	157	192	0.77
5	9	0.0019	4.1	8.4	0.1	26	52	193	219	188	221	0.85
6	9	0.42	9.1e+02	0.9	0.0	21	51	216	246	212	248	0.83
7	9	0.04	88	4.2	0.1	21	44	244	267	236	272	0.90
8	9	0.022	48	5.0	0.1	21	46	272	297	268	303	0.89
9	9	1.3	2.8e+03	-0.6	0.0	24	48	303	327	299	330	0.82

Coding Sequence: ATGGAGTTTGAAGATGTAGCAATACCATTGAATTCTGTtgaaattaaagaagaaaatgGATTTGCAGAAGACCCACTTAAAATAGAAATGGTAGATTTCAACTGCAAAGTAGATAACCTGCACGATGTCGTGGAAATTAAAGAAGAATCTGTATCGATCGAATGTGACACTTGCAACAAAACATTTACCCAGAAGTCGGGTTTCGAAGCTTATTCCAGGATTCATACAGGCCAACAGCCGTCTACTTGTGAAATATGTTTTACGAAATTTGTGCGAAATACTCAGTTGCATCAGCATTTGAAAGTTTtaggtgagaaaccatttacgtgtaaaatttgtgattcaAAATTACCTAACCGGTGTTCTTTGCAAAATCACATGAGAAGTCATACCGACGAACAACCTTTAGCTTGTGAACTGTGCGAtgggaaatttaaacaaaaattacagtTGCAGAAACATTTGAAAGTACATACTGGTGAAAAACCTTTTGTGTGTGAAATTTGCGGTTCAAAATTTAGAATGAAATCGGTTTTTCAAAATCATATGAGGATTCATTTAGACGATAAACGGTATATGTGCAAATTTTGCGACTCGAAATTTGTTCAAAGTGCACAACTTCGACGGCACCTGAGGGTTCAcactggcgaaaaaccgtttcTCTGCGAAACTTGTAATTCGAAATTTTCGGATAAAACTTGTTGGAAACGTCACTTAAGAATACACACGGGCGAAAAACCGTTCGGGTGCAATATGTGTGACTCAAAATTTAGACTTAAAGCACATCTACAACGTCACGTAAGAACTCATACCGGTGAAACTCCTTTTGCCTGCAAAATGTGTGAATCAAAGTTTAGAAGTCTTTCGCACTTACAGCGACATATAAAGGTTCATTTGGGCGAAAAATCGTATctgtgtaatttttgtaataagaCATTTTCACAAAATGTTGGCTTGAAGAGTCATTTATCCAGAATTCATAAACTGAAAAAGTAG
Protein Sequence: MEFEDVAIPLNSVEIKEENGFAEDPLKIEMVDFNCKVDNLHDVVEIKEESVSIECDTCNKTFTQKSGFEAYSRIHTGQQPSTCEICFTKFVRNTQLHQHLKVLGEKPFTCKICDSKLPNRCSLQNHMRSHTDEQPLACELCDGKFKQKLQLQKHLKVHTGEKPFVCEICGSKFRMKSVFQNHMRIHLDDKRYMCKFCDSKFVQSAQLRRHLRVHTGEKPFLCETCNSKFSDKTCWKRHLRIHTGEKPFGCNMCDSKFRLKAHLQRHVRTHTGETPFACKMCESKFRSLSHLQRHIKVHLGEKSYLCNFCNKTFSQNVGLKSHLSRIHKLKK

Sequence clustering based on sequence similarity using MMseqs2