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 10 0.0017 1.1 10.7 0.0 26 52 11 37 8 38 0.89

2 10 0.81 5.5e+02 2.1 0.1 21 49 34 62 30 66 0.83

3 10 1.2 8.4e+02 1.5 0.1 21 46 62 87 58 93 0.87

4 10 5.5 3.8e+03 -0.6 0.0 26 52 95 121 88 123 0.80

5 10 0.01 6.8 8.2 0.0 22 48 175 201 167 206 0.85

6 10 0.014 9.5 7.7 0.1 23 52 204 233 198 235 0.89

7 10 0.22 1.5e+02 3.9 0.9 23 47 232 256 229 262 0.85

8 10 5.8 4e+03 -0.7 0.6 21 34 258 271 253 285 0.73

9 10 0.0041 2.8 9.4 0.0 21 47 286 312 281 318 0.86

10 10 0.51 3.4e+02 2.7 0.0 21 44 314 337 309 341 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	10	0.0017	1.1	10.7	0.0	26	52	11	37	8	38	0.89
2	10	0.81	5.5e+02	2.1	0.1	21	49	34	62	30	66	0.83
3	10	1.2	8.4e+02	1.5	0.1	21	46	62	87	58	93	0.87
4	10	5.5	3.8e+03	-0.6	0.0	26	52	95	121	88	123	0.80
5	10	0.01	6.8	8.2	0.0	22	48	175	201	167	206	0.85
6	10	0.014	9.5	7.7	0.1	23	52	204	233	198	235	0.89
7	10	0.22	1.5e+02	3.9	0.9	23	47	232	256	229	262	0.85
8	10	5.8	4e+03	-0.7	0.6	21	34	258	271	253	285	0.73
9	10	0.0041	2.8	9.4	0.0	21	47	286	312	281	318	0.86
10	10	0.51	3.4e+02	2.7	0.0	21	44	314	337	309	341	0.89

Coding Sequence: ATGCGAATCCGTGAAGGCGTGAGATTGAAGCAATGCCCAGTCTGTGGAAAGTCATTCAGCCAGTCTCAAAATTTATCTACACACATGAGTTTACATACTGGCGAGAAACCTTACAATTGCATAGTTTGTTCCAAACGCTTCAGTCGATCCCATCACCTGGCAGCTCATATGACCATTCACACTGGAGAAAAGCCATACAAGTGTGCTGGGTGTGAAAAGTCCTTTGCTCTGTCTCACAGTCTGACgagacacatgaggattcacaccaGGGAGAAACGCTACAAGTGTGAAGCGTGTGAAAAGTCATTTTTCGAGTCCGAAGATTTGCGAATACACACAAGTCTACACGACGGTGAGAAACCGTACCAGTGTATAGAGTGCGAAGAGTCGTTTCTTGTTCCTGAGAATCTAGCTGCCCACATGGTCCTTCACACCGGAGAGAGACCGTACCATTGTAAACACTGCGGCAAGTCCTTTGGCCGTTCACAACATTTGGTTACACAcgtgagaattcacactggagacaaaccttacaaatgtTCTTTCTGCCCCAAGTCATTTCGGCAGTCTGGCAACTTAAACGTGCACATGAGCACGCACACCGAGGTGAAACCCCACCAGTGTCCGGAATGCGCCAAGTCATTCAGCCAATCCCAGCACCTGTCTGCACACATGAGTTTGCATACTGGTGTGAAGCCGTACCAGTGTCCTGTCTGTGCCAAGTGTTTCAGCCGTCTGCAGAACTTGTCCACACACGTGAGGATTCACAAGAGGGAGCGGCCGTACCAGTGTCCAGAGTGTGAAACTTATTTCAGTCTGCCTCACCATTTAAGTTCGCACATGAGAATCCACACCGGGGAGAAACCTTTTCAGTGTAATTTGTGTGGAAAGTCTTTCAGGCATTCACAAAACTTGAAAACGCACACACGGGTACACACCGGGGAAAAACCTTTCAAGTGTTTGAAGTGTGACAGGGCCTTTCGGCAGACAACTAAATTAAAGTTGCACATGAGAAGCCACAttgaataa
Protein Sequence: MRIREGVRLKQCPVCGKSFSQSQNLSTHMSLHTGEKPYNCIVCSKRFSRSHHLAAHMTIHTGEKPYKCAGCEKSFALSHSLTRHMRIHTREKRYKCEACEKSFFESEDLRIHTSLHDGEKPYQCIECEESFLVPENLAAHMVLHTGERPYHCKHCGKSFGRSQHLVTHVRIHTGDKPYKCSFCPKSFRQSGNLNVHMSTHTEVKPHQCPECAKSFSQSQHLSAHMSLHTGVKPYQCPVCAKCFSRLQNLSTHVRIHKRERPYQCPECETYFSLPHHLSSHMRIHTGEKPFQCNLCGKSFRHSQNLKTHTRVHTGEKPFKCLKCDRAFRQTTKLKLHMRSHIE

Sequence clustering based on sequence similarity using MMseqs2