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 7 0.005 74 6.2 0.1 23 44 8 29 2 33 0.88

2 7 0.0031 47 6.9 0.1 20 45 33 58 29 66 0.88

3 7 2.6 4e+04 -2.5 0.0 22 43 63 84 58 86 0.77

4 7 5.6e-05 0.84 12.5 0.0 21 44 118 141 113 145 0.91

5 7 0.24 3.6e+03 0.8 0.0 22 46 147 171 142 179 0.71

6 7 0.0051 77 6.2 0.0 22 44 175 197 171 204 0.88

7 7 0.99 1.5e+04 -1.1 0.0 26 44 207 225 200 231 0.81

#	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	7	0.005	74	6.2	0.1	23	44	8	29	2	33	0.88
2	7	0.0031	47	6.9	0.1	20	45	33	58	29	66	0.88
3	7	2.6	4e+04	-2.5	0.0	22	43	63	84	58	86	0.77
4	7	5.6e-05	0.84	12.5	0.0	21	44	118	141	113	145	0.91
5	7	0.24	3.6e+03	0.8	0.0	22	46	147	171	142	179	0.71
6	7	0.0051	77	6.2	0.0	22	44	175	197	171	204	0.88
7	7	0.99	1.5e+04	-1.1	0.0	26	44	207	225	200	231	0.81

Coding Sequence: ATGAGAACCCATGGGGAGACAAAGCCTTATCGCTGTACAATCTGCGAATCAACCTTTAATTTCTCTAGTTCTCTAAAGCGCCACATTAGAACGCACTCGAGCGAGAGACCTTTTGAGTGTACAACATGTGGGAAAGCGTTTACACAGTCGAGTCACTTGAAAACGCACATTCGCTATCACGAGGGCGATCGGCCGTATGACTGTGTGGCGTGCGACGCGAGCTTCATCACACTGGGAGGACTGAAGCGTCACTCCTCAACACACACGGGGGAGAACCAATTCAAGTGTGTCTTGTGCAAAGGGACGTTCGCGAGCTTCTACTACTTCAAGAGCCATATGTTAAAACACACGGAGGAAAACCCTTACCACTGCGACGTTTGTGATGCAAAGTTCACGCAGAGCCGATACCTCAAAACACACCTCATGTCGCACTCAGGGGAAAAGCAGTACGACTGTAGTGTCTGCGGTGCAAAGTTCGTGCACATCTTCAGTTACAAACGGCACTTGAAAATTCACACAGgcgaaaaacattttaagtgcacGATATGCGAGGCGGACTTCATCCAAGGCAGTGATCTCAAGAGGCACATGTTTACGCACACTGGGGAAAAACTATTCCGCTGTAAGTTGTGCGATAGAGGCTTTACGAGGTCTAACTTCTTGCGGAACCACATGACAACGCATGTTGAGAAGTTGTATGTGAAGTGTGAGGTGATTGAGACGGAGAGTGAACGGGAGGAGAAGTACTCTATACCAACGGATATACCTTTTAGATGTATGTTTTATAAAAGTGTATTATAA
Protein Sequence: MRTHGETKPYRCTICESTFNFSSSLKRHIRTHSSERPFECTTCGKAFTQSSHLKTHIRYHEGDRPYDCVACDASFITLGGLKRHSSTHTGENQFKCVLCKGTFASFYYFKSHMLKHTEENPYHCDVCDAKFTQSRYLKTHLMSHSGEKQYDCSVCGAKFVHIFSYKRHLKIHTGEKHFKCTICEADFIQGSDLKRHMFTHTGEKLFRCKLCDRGFTRSNFLRNHMTTHVEKLYVKCEVIETESEREEKYSIPTDIPFRCMFYKSVL

Sequence clustering based on sequence similarity using MMseqs2