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 0.0078 6 8.9 0.0 22 51 5 34 2 36 0.84

2 10 0.097 74 5.4 0.1 22 51 33 62 30 64 0.81

3 10 1.4 1e+03 1.7 0.1 23 46 62 85 58 91 0.85

4 10 0.011 8.5 8.4 0.0 26 45 93 112 86 115 0.88

5 10 0.021 16 7.5 0.2 20 51 115 146 113 148 0.87

6 10 0.53 4e+02 3.0 0.1 22 46 145 169 142 176 0.83

7 10 1.4 1.1e+03 1.6 0.1 20 47 171 198 168 203 0.81

8 10 0.066 50 5.9 0.2 22 52 201 231 198 233 0.89

9 10 0.21 1.6e+02 4.3 0.2 20 46 227 253 224 259 0.84

10 10 0.34 2.6e+02 3.6 0.2 22 52 257 287 254 288 0.86

#	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	0.0078	6	8.9	0.0	22	51	5	34	2	36	0.84
2	10	0.097	74	5.4	0.1	22	51	33	62	30	64	0.81
3	10	1.4	1e+03	1.7	0.1	23	46	62	85	58	91	0.85
4	10	0.011	8.5	8.4	0.0	26	45	93	112	86	115	0.88
5	10	0.021	16	7.5	0.2	20	51	115	146	113	148	0.87
6	10	0.53	4e+02	3.0	0.1	22	46	145	169	142	176	0.83
7	10	1.4	1.1e+03	1.6	0.1	20	47	171	198	168	203	0.81
8	10	0.066	50	5.9	0.2	22	52	201	231	198	233	0.89
9	10	0.21	1.6e+02	4.3	0.2	20	46	227	253	224	259	0.84
10	10	0.34	2.6e+02	3.6	0.2	22	52	257	287	254	288	0.86

Coding Sequence: ATGCATGAGGATAAGAGGCCCCATAAGTGTAAAGTGTGCGGAAAAGGATTTACCCAGGCTTCTAATTTAAgggcacatcttttgattcatgagggtaagaagccacataaatgtgaagtttgtggtaaagAAGTTACCCGTGCATCTACTTTgagaaaacatcttttgattcatgagggcaggaagccccataaatgtgaagtttgtgggaaacaGTTTACTCTGGCATCTACTTTGAgaaaacatcttttaattcatgagggtaaaaaagCTTATAAGTGTGCCAtttgtgggaaaggatttacccaagcatctaatttaaggaagcatcttttaattcatgagagTAAGCAACCGCACAAATGTGAAGCTTGTGGAAAAAGTTTTACGCAGGTATCTCATTTGAGGGCTCATCtattgattcatgagggtaaaaaaccacataaatgtgatgttTGCGGAAAATGCTTTACCCAGTTTTCTACTTTGAGGACTCACATTTTTACACATGAGAGtcagaagccacataaatgtgaagtttgtgagaaaagTTTTACCCATGCATCTCATTTGAAGACTCacattttgattcatgaaggtaacaaaccacataaatgcaaagtttgtggaaaatgttttacCCAGTTATCTActttaaggactcatcttttTATACATGAGAGCCAGAAGCCACATATATGTGAAATATGTGGGAATGGTTTTACCCGAATATCTCATTTGAgaactcatcttttgattcatgagggtaagagacctcataaatgtgaactttgtgggaaaagctttacccaGGTGCCTCATTTGAGAactcatcttttaattcatgagagCCAGAAGCCACTTAAGTGA
Protein Sequence: MHEDKRPHKCKVCGKGFTQASNLRAHLLIHEGKKPHKCEVCGKEVTRASTLRKHLLIHEGRKPHKCEVCGKQFTLASTLRKHLLIHEGKKAYKCAICGKGFTQASNLRKHLLIHESKQPHKCEACGKSFTQVSHLRAHLLIHEGKKPHKCDVCGKCFTQFSTLRTHIFTHESQKPHKCEVCEKSFTHASHLKTHILIHEGNKPHKCKVCGKCFTQLSTLRTHLFIHESQKPHICEICGNGFTRISHLRTHLLIHEGKRPHKCELCGKSFTQVPHLRTHLLIHESQKPLK

Sequence clustering based on sequence similarity using MMseqs2