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 11 0.016 9.5 7.4 0.2 22 45 9 32 6 39 0.87

2 11 0.085 50 5.1 0.1 21 45 36 60 28 63 0.80

3 11 0.0067 4 8.6 0.0 11 48 53 91 47 95 0.79

4 11 0.17 1e+02 4.1 0.0 22 48 93 118 89 123 0.84

5 11 3.5 2.1e+03 -0.1 0.1 21 37 120 137 117 147 0.72

6 11 0.00064 0.38 11.9 0.1 17 47 144 174 135 180 0.77

7 11 0.0023 1.3 10.1 0.2 19 45 175 201 172 204 0.89

8 11 0.0082 4.8 8.3 0.0 21 44 205 228 201 232 0.90

9 11 0.19 1.1e+02 4.0 0.0 21 44 233 256 228 264 0.84

10 11 3.6 2.1e+03 -0.1 0.0 26 46 262 282 258 290 0.80

11 11 4.9 2.9e+03 -0.6 0.0 21 51 285 315 275 316 0.75

#	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	11	0.016	9.5	7.4	0.2	22	45	9	32	6	39	0.87
2	11	0.085	50	5.1	0.1	21	45	36	60	28	63	0.80
3	11	0.0067	4	8.6	0.0	11	48	53	91	47	95	0.79
4	11	0.17	1e+02	4.1	0.0	22	48	93	118	89	123	0.84
5	11	3.5	2.1e+03	-0.1	0.1	21	37	120	137	117	147	0.72
6	11	0.00064	0.38	11.9	0.1	17	47	144	174	135	180	0.77
7	11	0.0023	1.3	10.1	0.2	19	45	175	201	172	204	0.89
8	11	0.0082	4.8	8.3	0.0	21	44	205	228	201	232	0.90
9	11	0.19	1.1e+02	4.0	0.0	21	44	233	256	228	264	0.84
10	11	3.6	2.1e+03	-0.1	0.0	26	46	262	282	258	290	0.80
11	11	4.9	2.9e+03	-0.6	0.0	21	51	285	315	275	316	0.75

Coding Sequence: ATGCACATGTTACTACAtgccgacgagaagccgttcagttgtaacGTTTGCGAATTCCAGACCCGACACAGCAGACGTCTGACCGAACACTTCCGAACGCATACGGGCGAGAAACCGTTGACTTGTAATGTTTGCGGGTACAATGCACGACATAACGGAACTTTGAAAATTCATATGCGGGTGCACACCGGCGAAaggccgttcagttgtgatcatTGCGACAAGAGCTTCCGATAcaagaaaaacttaaaattgcaCCTGCAAACGCACAACGACGACAAGCCGTTCAGCTGCAATATTTGCAGTTATAAGTCCCTGCAGAGCGGACATTTGAAGGAGCACATGCTGAAACACACGGGAGAGAAACcttacagttgtgatctttgcgattataaatccgTACGGTACGGAACTGTGAAAAGGCATCGCTTAACACAcagcgacgagaagccgttcaacTGTAATATTTGCGGTTACCAAGCCCGAGAGAGCGGAACTTTGAAAAAACATTTGCGAATGCACACCCACAGAgaaaagccgttcagttgtaatCTCTGCGATAAGAACTTCCGGCGCAAGGAAAATCTGCGAATTCACTTGCAAACGCAcacgggcgagaagccgttcacttGCAGTTTTTGCGATTGCAAATTCCGACAGGGCGCGCACTTGAAAGAGCATGTGCGaaagcacaccggcgagaaaccgttcacttgcgatctgtgcgattataagTCCCGCTGGGGCGGAAGTTTAAAAAAGCACATGTTAACGCACACGAGCAGATGCAACATTTGCGATTACCAAACCCAACAGACCGAATCGTTGGAAGAGCATATGAGAACACATACCGACGAGAAGCCTTTCTTCTGTGGGCTTTGCGATCGAAAATTCGAGGAGATTACACATTTGAAGGAGCACATGCAAACTCACACCGTCGAGAAGCCTTAA
Protein Sequence: MHMLLHADEKPFSCNVCEFQTRHSRRLTEHFRTHTGEKPLTCNVCGYNARHNGTLKIHMRVHTGERPFSCDHCDKSFRYKKNLKLHLQTHNDDKPFSCNICSYKSLQSGHLKEHMLKHTGEKPYSCDLCDYKSVRYGTVKRHRLTHSDEKPFNCNICGYQARESGTLKKHLRMHTHREKPFSCNLCDKNFRRKENLRIHLQTHTGEKPFTCSFCDCKFRQGAHLKEHVRKHTGEKPFTCDLCDYKSRWGGSLKKHMLTHTSRCNICDYQTQQTESLEEHMRTHTDEKPFFCGLCDRKFEEITHLKEHMQTHTVEKP

Sequence clustering based on sequence similarity using MMseqs2