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 0.094 17 5.3 0.2 18 45 25 51 16 54 0.84

2 6 0.005 0.91 9.4 0.0 21 45 55 79 51 82 0.91

3 6 0.0018 0.32 10.8 0.1 21 45 83 107 79 110 0.91

4 6 0.14 26 4.7 0.0 21 45 111 135 107 141 0.90

5 6 0.0089 1.6 8.6 0.0 21 45 167 191 157 195 0.89

6 6 0.079 14 5.5 0.0 21 45 195 219 191 223 0.89

#	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	0.094	17	5.3	0.2	18	45	25	51	16	54	0.84
2	6	0.005	0.91	9.4	0.0	21	45	55	79	51	82	0.91
3	6	0.0018	0.32	10.8	0.1	21	45	83	107	79	110	0.91
4	6	0.14	26	4.7	0.0	21	45	111	135	107	141	0.90
5	6	0.0089	1.6	8.6	0.0	21	45	167	191	157	195	0.89
6	6	0.079	14	5.5	0.0	21	45	195	219	191	223	0.89

Coding Sequence: ATGGCTTCCAAActgcggggcgacgccgcccaGCAACCCACTCTGTCTCGTCGGACCGCGCACGTCCGCAATCGTGCCGGGGAGAAGCCAGTCGAGTGCGCAGTCTGTCAGAAGAAGTTTAGGTACCCATGTGATCTCAAAGTTCATCTCCGAACCCATACAGGCGAGAAGCCATTCGAGTGCACAGTCTGTCTGAAGAAGTTTACAAAAGCATCGGATCTGAGAAGACATTTACGAACCCATACAGGCGAGAAGCCATTCGAGTGCACAGTCTGTCAGGAAAAGTTCAGTCAAGCATCGAATCTGAGAAGCCATTTACGGACCCATACAGGCGAAAAGCCATTCGAGTGCATAGTCTGTCTGAAGAAGTTCAGTAAAGCATCGGATCTGAGAAGCCATTTACGAACCCATACAGGCGAGAAGCGATTCGAGTGCACAGTCTGTCAGAAGAAGTTCAGTTACACAAGTCATCTCAAAACTCACCTTCGAACCCATACAGGCGAGAAGCCATTCGAGTGCACGGTCTGTTTGAAGAAGTTTAATGATACATCGAATCTGAGAAGCCATTTACGAACCCATACAGGCGAAAAGCCATTCGAGTGCACAATTTGTCAGAAGAAATTCACTCGAGAGGATAATCTTAAAATACATCTAAGAACCCATACAGAGGAGACCCCGTTCGAGTGCAGTCTGTCAGGAAAAGTTTAG
Protein Sequence: MASKLRGDAAQQPTLSRRTAHVRNRAGEKPVECAVCQKKFRYPCDLKVHLRTHTGEKPFECTVCLKKFTKASDLRRHLRTHTGEKPFECTVCQEKFSQASNLRSHLRTHTGEKPFECIVCLKKFSKASDLRSHLRTHTGEKRFECTVCQKKFSYTSHLKTHLRTHTGEKPFECTVCLKKFNDTSNLRSHLRTHTGEKPFECTICQKKFTREDNLKIHLRTHTEETPFECSLSGKV

Sequence clustering based on sequence similarity using MMseqs2