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 1.2 8e+02 1.6 0.0 22 46 7 31 4 37 0.82

2 10 0.21 1.4e+02 4.0 0.0 21 49 34 62 30 65 0.87

3 10 0.0076 5.2 8.6 0.1 21 48 62 89 59 93 0.87

4 10 0.042 28 6.2 0.1 21 51 90 120 86 122 0.87

5 10 0.24 1.6e+02 3.8 0.2 21 46 118 143 114 149 0.85

6 10 0.021 14 7.2 0.2 21 52 146 177 142 179 0.91

7 10 0.00037 0.25 12.8 0.0 21 51 202 232 185 234 0.85

8 10 0.46 3.1e+02 2.9 0.0 21 48 230 257 226 263 0.80

9 10 0.4 2.7e+02 3.1 0.0 22 48 259 285 251 289 0.84

10 10 0.024 16 7.0 0.3 21 46 286 311 282 316 0.88

#	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	1.2	8e+02	1.6	0.0	22	46	7	31	4	37	0.82
2	10	0.21	1.4e+02	4.0	0.0	21	49	34	62	30	65	0.87
3	10	0.0076	5.2	8.6	0.1	21	48	62	89	59	93	0.87
4	10	0.042	28	6.2	0.1	21	51	90	120	86	122	0.87
5	10	0.24	1.6e+02	3.8	0.2	21	46	118	143	114	149	0.85
6	10	0.021	14	7.2	0.2	21	52	146	177	142	179	0.91
7	10	0.00037	0.25	12.8	0.0	21	51	202	232	185	234	0.85
8	10	0.46	3.1e+02	2.9	0.0	21	48	230	257	226	263	0.80
9	10	0.4	2.7e+02	3.1	0.0	22	48	259	285	251	289	0.84
10	10	0.024	16	7.0	0.3	21	46	286	311	282	316	0.88

Coding Sequence: ATGAGGGTTCACATAGGTGAAAAACCTATCAGATGTTCTGTTTGTGATGTTGGATTCCTGCACTCATCTCACTTGACTAAACACGCgaggattcacactggcgaAAAACCGTACAAATGCGGTGAATGTAATGCGAATTTCTCAACGTCTTCTGCGCTCAATAATCAtttgagaattcacactggtgaaaaaccatacaaatgctCCAATTGTAATTCAGCATTCAGACAATCGTCTCACCTCACAAgtcacatgagaattcacacaggCGAGAAACCTTACAAATGTTCCGAGTGCGATGAAGCGTTTTCTCAGTCGTGTAATCTGACGAgtcacatgaggattcacactggcgaAAAGCCATACAGATGTTCAATGTGTGCATCAATATTCTCGCACTCATCTCATTTAATAAAGCACACGAGagttcacactggtgaaaagccatacaaatgttcTGAGTGTGAAAAAGCATTCTCAGAATCAAGCAGTTTAAAAAGGCACATAAGGCTTCATACTGGTTGTAAACCATACAATTGTTCAGAATGTGATAAGAAATTTTCTGAATCTGgtagtttaaaaaaacacatttgttcccacactggtgagaaaccgtTCAAATGTTCTGTGTGTGACAAAACGTTTTCTGAATCACGTAATTTAACTaagcacatgagaattcactCTGAAGAGAAGCCATTCAAGTGTTCTGGGTGCTATAAAACTTTCACAAATTGCATAGAGTTAACTAAACACAAGAAAATTCACACTGATGATAAGCCATACATGTGTGCCGAGTGTAATAAATCATTCtcaaaatcttcaaaattaactaggcacatgaggattcatactggaGAAAAGCCATTCAAATGTTTCAAGTGTGTTCAGTCTTTTTCATCTTCGTGTAATTTAAAAAGGCATTTTAAGATTCACAGACATCAGATTATACAAGTCTGA
Protein Sequence: MRVHIGEKPIRCSVCDVGFLHSSHLTKHARIHTGEKPYKCGECNANFSTSSALNNHLRIHTGEKPYKCSNCNSAFRQSSHLTSHMRIHTGEKPYKCSECDEAFSQSCNLTSHMRIHTGEKPYRCSMCASIFSHSSHLIKHTRVHTGEKPYKCSECEKAFSESSSLKRHIRLHTGCKPYNCSECDKKFSESGSLKKHICSHTGEKPFKCSVCDKTFSESRNLTKHMRIHSEEKPFKCSGCYKTFTNCIELTKHKKIHTDDKPYMCAECNKSFSKSSKLTRHMRIHTGEKPFKCFKCVQSFSSSCNLKRHFKIHRHQIIQV

Sequence clustering based on sequence similarity using MMseqs2