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 6.6 1.2e+03 -0.6 0.1 21 31 27 37 13 54 0.78

2 11 1.6 2.9e+02 1.3 0.0 21 45 55 79 43 82 0.88

3 11 0.017 3.1 7.7 0.1 21 46 83 108 78 114 0.86

4 11 0.14 25 4.8 0.0 21 46 111 136 107 142 0.86

5 11 0.028 5.1 7.0 0.4 21 45 139 163 135 167 0.91

6 11 0.032 5.9 6.8 0.0 21 45 167 191 163 195 0.91

7 11 0.016 3 7.7 0.4 21 47 195 221 191 226 0.86

8 11 0.34 63 3.5 0.0 21 46 223 248 221 254 0.86

9 11 0.0002 0.036 13.9 0.1 21 47 251 277 247 282 0.86

10 11 0.004 0.73 9.7 0.0 21 52 279 310 275 311 0.87

11 11 0.0013 0.24 11.2 0.1 21 45 307 331 303 338 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	11	6.6	1.2e+03	-0.6	0.1	21	31	27	37	13	54	0.78
2	11	1.6	2.9e+02	1.3	0.0	21	45	55	79	43	82	0.88
3	11	0.017	3.1	7.7	0.1	21	46	83	108	78	114	0.86
4	11	0.14	25	4.8	0.0	21	46	111	136	107	142	0.86
5	11	0.028	5.1	7.0	0.4	21	45	139	163	135	167	0.91
6	11	0.032	5.9	6.8	0.0	21	45	167	191	163	195	0.91
7	11	0.016	3	7.7	0.4	21	47	195	221	191	226	0.86
8	11	0.34	63	3.5	0.0	21	46	223	248	221	254	0.86
9	11	0.0002	0.036	13.9	0.1	21	47	251	277	247	282	0.86
10	11	0.004	0.73	9.7	0.0	21	52	279	310	275	311	0.87
11	11	0.0013	0.24	11.2	0.1	21	45	307	331	303	338	0.89

Coding Sequence: ATGGCTTCCAAATtgcggggcgacgccgctcAGCAACCGACTTCGTCTCGTCGGAACGCGCACGTCCGCACTCGTGCCGGGGAGAAGCCATTAGAGTGCGCAGTCTGCCAGAAGAAGTTTGGGTACCCAAGTCTTCTCAAAATTCATTTACGAACCCATACAGGCGAGAAGCCCTTCGAGTGCACAAACTGTCAGAAAAAGTTAGGTTCTTCATTTGCTCTTAGAATCCATCTACGAACCCATACAGGCGAGAAGCCATTCGAGTGCACAGTCTGTCTGAAGAAGTTTAATCATGAATCTCATCTCAGAAGACATTTGCGAACCCATACAGGTGAGAAGCCATACGCGTGCACAGTCTGTTTGAAGAAGTTTAATGATGCGTGGTCTCTCAGAGTCCATTTACGAACCCATACAGGCGAGAAGCCATTCGAGTGCACAGTCTGCCAGAAAAAGTTTAGTCATGCATGTAGTCTCAGACGCCATTTACAAACCCATACAGGTGAGAAGCCATTCGAGTGCACAGTCTGTCTGAAGAAGTTAAAAAATGAATTTCTTCTCAGAAGACATTTACGAACCCATACAGGCGAGAAGCCATTCGAGTGCACAGTCTGCCAGAAAAAGTTTAGTCATGCATGTAGTCTCAGACGCCATTTACAAACCCATACAGGTGAGAAGCCATTCGAGTGCACAGTCTGTCTGAAGAAGTTAAAAAATGAATTTCTTCTCAGAAGTCATTTACGAACCCATACAGGTGAGAAGCCATTCGAGTGCACAGTCTGCCAGAAAAAGTTTCGTCAATCATCGACTCTCAGAAGCCATTTACAAACCCATACAGGTGAGAAGCcattcgagtgcacagtttgtcTGAAGAAGTTTAATATAGCATCGAATCTCAGAAGACATTTTCGAACCCATACAGTCGAGAAGCcattcgagtgcacagtttgcctGAAGGAGTTTAATGATGCATCGAATCTCAGAAGACATTTACGAACCCATGCAGGGGTGAATCCACCCCAGTCTCTCTGA
Protein Sequence: MASKLRGDAAQQPTSSRRNAHVRTRAGEKPLECAVCQKKFGYPSLLKIHLRTHTGEKPFECTNCQKKLGSSFALRIHLRTHTGEKPFECTVCLKKFNHESHLRRHLRTHTGEKPYACTVCLKKFNDAWSLRVHLRTHTGEKPFECTVCQKKFSHACSLRRHLQTHTGEKPFECTVCLKKLKNEFLLRRHLRTHTGEKPFECTVCQKKFSHACSLRRHLQTHTGEKPFECTVCLKKLKNEFLLRSHLRTHTGEKPFECTVCQKKFRQSSTLRSHLQTHTGEKPFECTVCLKKFNIASNLRRHFRTHTVEKPFECTVCLKEFNDASNLRRHLRTHAGVNPPQSL

Sequence clustering based on sequence similarity using MMseqs2