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 6 0.023 1.8 8.7 0.0 21 45 111 135 102 142 0.85

2 6 0.012 0.93 9.7 0.1 21 45 139 163 135 170 0.86

3 6 0.11 8.9 6.5 0.1 21 49 167 195 163 198 0.85

4 6 0.89 70 3.6 0.0 22 44 196 218 192 222 0.88

5 6 0.045 3.6 7.8 0.1 20 47 222 249 218 254 0.84

6 6 0.0011 0.089 12.9 0.2 21 45 251 275 247 282 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	6	0.023	1.8	8.7	0.0	21	45	111	135	102	142	0.85
2	6	0.012	0.93	9.7	0.1	21	45	139	163	135	170	0.86
3	6	0.11	8.9	6.5	0.1	21	49	167	195	163	198	0.85
4	6	0.89	70	3.6	0.0	22	44	196	218	192	222	0.88
5	6	0.045	3.6	7.8	0.1	20	47	222	249	218	254	0.84
6	6	0.0011	0.089	12.9	0.2	21	45	251	275	247	282	0.88

Coding Sequence: ATGAATATTTGTGCAATAAAAGAAGAAAAAATCGAAATTATTGACGAATCAAAACCAGAATTCGACAATTTTGATCAGATGGAAAAAATTGAAGAACATGAGGTGAATCTTGAATTTGAAATTAAAAAAGAAGAATTAGAATCTACAATAGATTTACCGGATTTTAAAATCGAATTTCAAGATTCTGATGAAGAATTAAATTCAGAGCGAGATTCAACAAAACAGGAACCGAGTTATAAAAATATTGACGATAAATCTTTTAAATGTAAAATATGTTCGAAATGTTTCACACAATTGAGTCATATAAAATCTCATATTAGAACTCACACTGGAGAAAAACCTTTTAAATGTAAATTATGTCCGAAATGTTTCACACAATCCGGTAATTTAAAATATCATATTAAAAGTCACACTGGAGAAAAACCTTTTAAATGTAAATTATGTTCGAAATGTTTCACACAATCCAGTAATTTAAAATGTCATATTAGAACTCACACTGGAGAAAAACCTTTTAATTGTAAATTATGTTCGAAATGTTTCACACAATCCAGTATTTTAAAAAATCATATGAAAACTCACACTAACCAAAAACCATTTAAATGTAAAATATGTTCGAAATCTTTCACACAATCCATTATTTTAAAATCTCATATTAGCACTCACACTGGAGAAAAACCTTTTAAATGTAAATTATGTTCGAATTGTTTCACAAAATCCAGTAATTTAAAATGTCATATTAGAACTCACACTAACGAAAAACCTTTTGAATGTGAAATTTGTTCGAAATGTTTCAGACAATCCGGTCACTTAAAAAAACACATTAGAACTCACATTAATAAAAACGCTAAGTAA
Protein Sequence: MNICAIKEEKIEIIDESKPEFDNFDQMEKIEEHEVNLEFEIKKEELESTIDLPDFKIEFQDSDEELNSERDSTKQEPSYKNIDDKSFKCKICSKCFTQLSHIKSHIRTHTGEKPFKCKLCPKCFTQSGNLKYHIKSHTGEKPFKCKLCSKCFTQSSNLKCHIRTHTGEKPFNCKLCSKCFTQSSILKNHMKTHTNQKPFKCKICSKSFTQSIILKSHISTHTGEKPFKCKLCSNCFTKSSNLKCHIRTHTNEKPFECEICSKCFRQSGHLKKHIRTHINKNAK

Sequence clustering based on sequence similarity using MMseqs2