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 5.2 4e+03 -0.2 0.1 34 45 13 24 3 30 0.66

2 11 0.0071 5.5 9.0 0.1 26 46 57 77 49 83 0.85

3 11 2 1.5e+03 1.2 0.0 26 52 85 111 79 112 0.82

4 11 0.11 86 5.2 0.2 22 46 109 133 106 140 0.72

5 11 0.021 16 7.5 0.1 22 50 137 165 133 168 0.84

6 11 0.032 25 6.9 0.1 22 51 165 194 161 196 0.85

7 11 0.11 83 5.2 0.0 22 52 193 223 189 225 0.85

8 11 3.4 2.6e+03 0.4 0.1 22 45 221 244 218 251 0.82

9 11 0.21 1.6e+02 4.3 0.1 22 44 249 271 234 277 0.83

10 11 0.021 16 7.5 0.2 22 51 277 306 272 308 0.85

11 11 0.097 74 5.4 0.2 23 50 306 332 302 335 0.83

#	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	5.2	4e+03	-0.2	0.1	34	45	13	24	3	30	0.66
2	11	0.0071	5.5	9.0	0.1	26	46	57	77	49	83	0.85
3	11	2	1.5e+03	1.2	0.0	26	52	85	111	79	112	0.82
4	11	0.11	86	5.2	0.2	22	46	109	133	106	140	0.72
5	11	0.021	16	7.5	0.1	22	50	137	165	133	168	0.84
6	11	0.032	25	6.9	0.1	22	51	165	194	161	196	0.85
7	11	0.11	83	5.2	0.0	22	52	193	223	189	225	0.85
8	11	3.4	2.6e+03	0.4	0.1	22	45	221	244	218	251	0.82
9	11	0.21	1.6e+02	4.3	0.1	22	44	249	271	234	277	0.83
10	11	0.021	16	7.5	0.2	22	51	277	306	272	308	0.85
11	11	0.097	74	5.4	0.2	23	50	306	332	302	335	0.83

Coding Sequence: atgaagataGCCAAATACCCaataatttgtaaacaatttttaaatgcttctaATTTGAGGAATCATCTTTTGATTTACAGGATCAAGAAGTTGCCTAAATACAATGCTTGTGGTAAGCGCTTTATCAAGTCAAGGAGACATTTTCTGCATGAGGACAACAAgcaacataaatgtgaaatttgtggaaagagcaTTAACAAGGCATCTAATTTGAGACAACATCTTCTAATTCACAAGGGCAAGAAATCCTTTaactgtgaagtttgtgggaagagctttaacaAGGCATCTTATTTGAGgcaacatcttttaattcacaaAGGCAAGAAGCCttataagtgtgaaatttgtgggttTAGCTATATCCATGCATCTTATTTGCGGCGACATCTTTTAACCCATGAGGGCAAAAAGccccataagtgtgaaatttgtggattGACCTTTACCTATGTCTTTAATTTAAGaagacatattttgattcatgatggcaagaagccacataaatgtgatgcttgtgggaagagctttactcagtcATATTGTTTGAGGAAACATCTTCttattcatgagggcaagaagccccataaatgtgaattttgtggtaAAAGCTTTACCCAGATATCTAATTTGAAacaacatcttttaattcatgagggcaagaagccacataaatgtgaagtttgtgggctGAACTTTGCACATCCAGCTAATAAGAAAAGACATTTATTTACTCATGAGGGCAGGAAGCCATacaagtgtgaagtttgtgacTTGAGCTTTACTCAAACATCTTCTTTGAAGAGACATGTACTAtctcatgagggcaagaaaccacatgAATGCAAAATTTGCGAAAGGAGCTTCACACAGGCAGGAACTTTGAGacaacatcttttaattcatgagggcagaaagccacataagtgtgaagtttgtggtctgAGCTTTACTCGGATATTTAATTTAAGGAGACATGTTTTGACTCATCTGGGCAAGAAACCCCATAATTGA
Protein Sequence: MKIAKYPIICKQFLNASNLRNHLLIYRIKKLPKYNACGKRFIKSRRHFLHEDNKQHKCEICGKSINKASNLRQHLLIHKGKKSFNCEVCGKSFNKASYLRQHLLIHKGKKPYKCEICGFSYIHASYLRRHLLTHEGKKPHKCEICGLTFTYVFNLRRHILIHDGKKPHKCDACGKSFTQSYCLRKHLLIHEGKKPHKCEFCGKSFTQISNLKQHLLIHEGKKPHKCEVCGLNFAHPANKKRHLFTHEGRKPYKCEVCDLSFTQTSSLKRHVLSHEGKKPHECKICERSFTQAGTLRQHLLIHEGRKPHKCEVCGLSFTRIFNLRRHVLTHLGKKPHN

Sequence clustering based on sequence similarity using MMseqs2