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 0.0028 2.1 10.3 0.1 21 45 4 28 2 34 0.91

2 10 0.056 42 6.1 0.0 25 51 36 62 28 64 0.83

3 10 0.059 45 6.1 0.0 23 52 62 91 58 92 0.86

4 10 0.014 10 8.1 0.1 23 52 90 119 85 121 0.86

5 10 3.8 2.9e+03 0.3 0.0 23 47 118 142 113 147 0.82

6 10 0.23 1.8e+02 4.2 0.0 22 52 145 175 141 177 0.88

7 10 9.2 7e+03 -1.0 0.1 23 45 174 196 170 203 0.76

8 10 0.12 94 5.0 0.1 20 45 199 224 186 231 0.89

9 10 4.4 3.4e+03 0.1 0.1 26 46 233 253 228 261 0.80

10 10 0.39 3e+02 3.4 0.1 22 44 285 307 281 311 0.87

#	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	0.0028	2.1	10.3	0.1	21	45	4	28	2	34	0.91
2	10	0.056	42	6.1	0.0	25	51	36	62	28	64	0.83
3	10	0.059	45	6.1	0.0	23	52	62	91	58	92	0.86
4	10	0.014	10	8.1	0.1	23	52	90	119	85	121	0.86
5	10	3.8	2.9e+03	0.3	0.0	23	47	118	142	113	147	0.82
6	10	0.23	1.8e+02	4.2	0.0	22	52	145	175	141	177	0.88
7	10	9.2	7e+03	-1.0	0.1	23	45	174	196	170	203	0.76
8	10	0.12	94	5.0	0.1	20	45	199	224	186	231	0.89
9	10	4.4	3.4e+03	0.1	0.1	26	46	233	253	228	261	0.80
10	10	0.39	3e+02	3.4	0.1	22	44	285	307	281	311	0.87

Coding Sequence: ATGCGTGAGAGCcacaaaccacataaatgtgaagtttgtgggaaaaattTCAGTGAGGCATCTAACCTTAGGCGACATCTTTCAACTCATGAAGGAAAGAAATGGCATACATGTGAGATTTGTGGAGAAAGTTTTACCCAGGTATCTAGTTTGAAGCGACATGTTTTAATTCATGAAGGAatgaagccacataaatgtgaagtttgtgggaaaagttttACTCAAGTGTCTAGCTTGAAGCGACATCTCTTGATTCATGAAGAAATGAAACCATATAATTGTGAGGTTTGTGAGAAAAAATTTACCCAGGTATCGAGCTTGAGGcgtcatcttttgattcatgaaggaatgaagccatataaatgtgaagtttgtgggaaaagctttacccaGACATTTCATTTACAGATACATCTTTTggttcatgagggtaagaaaccacataaatgtgaagtttgtggtaaaagTTTTACCCAGGCTTCTACCCTGAAAGGACATCTTAtgattcatgaaaaaattaagcCATAcatatgtgaagtttgtgggaagagctatCCATATGCCTCTCGTTTAAGGACACATTTATTAACACATCAGGGCCAGAAACCAcaaaaatgtgaagtttgtgggaagtgCTTTACCCAGGCATCAACTTTAAAGGGACATCTCTTGATTCATGCCAAAAATAAGCtacataagtgtgaaatttgtagTAAGAGGTTTACACGGTCATCTACCCTAAaggaacatattttgattcatgtcGGAAAAAAACCACATAAGtgtaaagtttgtggaaagagctttacaaGGGCATCTACCTTAAaggaacatattttgattcatgaaggaaagagGCCACATAAGtgtaaagtttgtggaaagagctttacacagacatctactttaagggaacatattttgattcattattGA
Protein Sequence: MRESHKPHKCEVCGKNFSEASNLRRHLSTHEGKKWHTCEICGESFTQVSSLKRHVLIHEGMKPHKCEVCGKSFTQVSSLKRHLLIHEEMKPYNCEVCEKKFTQVSSLRRHLLIHEGMKPYKCEVCGKSFTQTFHLQIHLLVHEGKKPHKCEVCGKSFTQASTLKGHLMIHEKIKPYICEVCGKSYPYASRLRTHLLTHQGQKPQKCEVCGKCFTQASTLKGHLLIHAKNKLHKCEICSKRFTRSSTLKEHILIHVGKKPHKCKVCGKSFTRASTLKEHILIHEGKRPHKCKVCGKSFTQTSTLREHILIHY

Sequence clustering based on sequence similarity using MMseqs2