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 9 0.052 40 6.2 0.0 23 52 26 55 23 57 0.89

2 9 0.054 42 6.2 0.0 22 52 53 83 50 84 0.84

3 9 0.23 1.8e+02 4.2 0.0 22 46 81 105 78 111 0.86

4 9 0.057 44 6.1 0.1 20 52 135 167 129 168 0.87

5 9 2.4 1.9e+03 0.9 0.0 20 47 163 190 161 196 0.80

6 9 2.2 1.7e+03 1.1 0.0 22 43 193 214 188 222 0.84

7 9 0.3 2.3e+02 3.8 0.0 26 51 225 250 218 252 0.83

8 9 0.059 45 6.1 0.7 22 46 249 273 246 280 0.81

9 9 0.73 5.6e+02 2.6 0.0 22 44 277 299 274 303 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	9	0.052	40	6.2	0.0	23	52	26	55	23	57	0.89
2	9	0.054	42	6.2	0.0	22	52	53	83	50	84	0.84
3	9	0.23	1.8e+02	4.2	0.0	22	46	81	105	78	111	0.86
4	9	0.057	44	6.1	0.1	20	52	135	167	129	168	0.87
5	9	2.4	1.9e+03	0.9	0.0	20	47	163	190	161	196	0.80
6	9	2.2	1.7e+03	1.1	0.0	22	43	193	214	188	222	0.84
7	9	0.3	2.3e+02	3.8	0.0	26	51	225	250	218	252	0.83
8	9	0.059	45	6.1	0.7	22	46	249	273	246	280	0.81
9	9	0.73	5.6e+02	2.6	0.0	22	44	277	299	274	303	0.89

Coding Sequence: ATGTGTCAACTTTGTGGAAAAAGTTTTACCCTTGCATCTTATTTaaggaaacatattttgattcatgggGGCaggaagccacataagtgtgaagtttgtggcaagagctttacCCAAGCATTTTCCCTGAGAGATCATCTTTTACTTCATGAAGGCAAGAAGCCCCACatgtgtgaaatttgtggaaagagttttacccGAGCATCTtctttaaggaaacatctttggattcatgagggcaagaaaccctataaatgtgaaatatgtggaaaatgcttTGCTGACACATCTAATTTCAGGgtgcatcttttgattcatgagggcaagaaatcCCATATGTGTGAACTTTGTGGAAAGGGTTTTACCCATGCATCTTATTTGAGGCAGCATCATTTGATTCATGATAGCAAGAAGCCCCATATATGTGaactttgtggaaagagttttacccaTGCATCTAATATGAGGATGCATCTTTTAATTCAtcagggtaagaaaccacataagtgtgaagtttgtgggaagaccTTTACCCATGCTGTTGCATTAAAAGGACATCTCTTTACTCATGAATGCAAGAAACCatttaaatgtgaagtttgtgggaaaggGTTTACCCAGAAATCTCTTTTGAggaaacataatttaattcatgagggcaagaagcgccataagtgtgaaatttgtggaaaaggtTTTACTGATGCATCAAATTTGAGGgggcatcttttgattcatgagggcaaaaagccacataagtgtgaagtttgtggaaagagctttacccaagCATGTCATTTGAGGAGACATAATTTGATTCATAATGGTAAGAAGCCACATGAATGTGAAGTTTGTAAAAAGAGCTTTTCTGAAGCATTTAAATTAAGGAAACATCTTCTTAACCATGAGGATAATAAGTCTCCATAA
Protein Sequence: MCQLCGKSFTLASYLRKHILIHGGRKPHKCEVCGKSFTQAFSLRDHLLLHEGKKPHMCEICGKSFTRASSLRKHLWIHEGKKPYKCEICGKCFADTSNFRVHLLIHEGKKSHMCELCGKGFTHASYLRQHHLIHDSKKPHICELCGKSFTHASNMRMHLLIHQGKKPHKCEVCGKTFTHAVALKGHLFTHECKKPFKCEVCGKGFTQKSLLRKHNLIHEGKKRHKCEICGKGFTDASNLRGHLLIHEGKKPHKCEVCGKSFTQACHLRRHNLIHNGKKPHECEVCKKSFSEAFKLRKHLLNHEDNKSP

Sequence clustering based on sequence similarity using MMseqs2