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 4 0.0001 2.6 9.7 1.6 23 48 5 30 2 35 0.91

2 4 0.0016 40 5.9 0.1 22 52 33 63 27 65 0.86

3 4 0.00082 20 6.8 0.0 16 46 87 117 83 120 0.80

4 4 5.5e-05 1.4 10.5 0.1 21 47 120 146 116 150 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	4	0.0001	2.6	9.7	1.6	23	48	5	30	2	35	0.91
2	4	0.0016	40	5.9	0.1	22	52	33	63	27	65	0.86
3	4	0.00082	20	6.8	0.0	16	46	87	117	83	120	0.80
4	4	5.5e-05	1.4	10.5	0.1	21	47	120	146	116	150	0.89

Coding Sequence: atgcatttcaATAATCCAAGGAAATGTTCACTATGTACACGAATATGCTCATCAGAAAGAAATTTGGTTCGTCacataaagagaaaacattccACAGACAAAGAATTCACTTGTGCAACGTGTGGAGGACGATTTGCTTACTCATCAGAACTTAGGAACCATatcagtaaagtccacaatAAGAAACCTAAGCCAGCGCTTAAATGTAAATTCTGTGATAAAACTTATGTGACCCAAAAGTCTGTGATTATTCATGAACGATCTGCTCATACAGGTGAACGTCCTGCAGAATGCTCTGTTTGTTCAAAAGGTTTCTTCCATGAAGACTATCTCAAGGAACACATGAGACTCCATACAGGCGAGGCTCCATTCAAATGTCCTATCTGTGATAGAGGCTATGCTCAGCGTGGTAATATGAAGAGCCATCTTAGAATACATAGAATATCAGAGTTAGATGCTCGAACATTAAGTAAGATGAAGCCCAATTACTTGAAATTGTTAAAAGTTTGA
Protein Sequence: MHFNNPRKCSLCTRICSSERNLVRHIKRKHSTDKEFTCATCGGRFAYSSELRNHISKVHNKKPKPALKCKFCDKTYVTQKSVIIHERSAHTGERPAECSVCSKGFFHEDYLKEHMRLHTGEAPFKCPICDRGYAQRGNMKSHLRIHRISELDARTLSKMKPNYLKLLKV

Sequence clustering based on sequence similarity using MMseqs2