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 8 0.0043 2.9 9.4 0.1 17 51 30 65 15 67 0.78

2 8 0.37 2.5e+02 3.2 0.0 21 45 63 87 61 90 0.90

3 8 0.2 1.3e+02 4.0 0.0 21 51 91 121 87 123 0.86

4 8 0.38 2.6e+02 3.1 0.0 21 44 119 142 115 146 0.89

5 8 0.12 80 4.8 0.0 20 46 146 172 139 179 0.87

6 8 4.1 2.8e+03 -0.2 0.0 22 51 176 205 173 206 0.80

7 8 0.14 98 4.5 0.0 21 48 203 230 195 234 0.85

8 8 0.11 76 4.8 0.0 21 46 231 256 227 259 0.91

#	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	8	0.0043	2.9	9.4	0.1	17	51	30	65	15	67	0.78
2	8	0.37	2.5e+02	3.2	0.0	21	45	63	87	61	90	0.90
3	8	0.2	1.3e+02	4.0	0.0	21	51	91	121	87	123	0.86
4	8	0.38	2.6e+02	3.1	0.0	21	44	119	142	115	146	0.89
5	8	0.12	80	4.8	0.0	20	46	146	172	139	179	0.87
6	8	4.1	2.8e+03	-0.2	0.0	22	51	176	205	173	206	0.80
7	8	0.14	98	4.5	0.0	21	48	203	230	195	234	0.85
8	8	0.11	76	4.8	0.0	21	46	231	256	227	259	0.91

Coding Sequence: ATGCTTTCTTCAAACTCTGGTGAAAATACACTTAAAAGTGTTGGTCGTGGTAAAACATCACCACAATCGTCTCAGCTAGTGAAACGTGCGAGGACTCGTGCAGGCGAAAAGTCGTTCAAGTGCGTCGAGTGTTTCAAGTCATTACGAAATTCTAGCGATTTGAGGGCGCATATGAGGATCCACACAGGAgaaaagccatttaagtgtgtcgagtgttcaaaattattcagaaattccGGTAGCTTAAAAGTGCACATGAGGTTTCACACCGACGAGAAACCGTTCAAATGCGTCGAGTGTGATAAAGCATTTAAACAGTACTTTGAACTGACGAGgcatatgaggattcacaccggTGAGAAACCGTTTAAATGTGTTCAGTGTGACATTACGTTCAAACAATCCTCCCATCTGACAGATCACATGAGGAAACACACGGGTGAACAGCCATTCAAGTGTGTCGAGTGTTCCAAACTGTTTACGAGGTCTAGCACTTTAAAagaacacatgaggattcacacggGGGAGAAGGCGTTCaagtgtgttgagtgttttaaatcgTTCACCAATTCTTATAAACTGAAAGAACACACGAGGTTGCACACAGGTGAGAAGCCATTCAGGTGTCTTGAGTGTTTTACTTTGTTCACAAATGCTAGTAATTTAAACGtgcatatgaggattcataccgGGGAAAAGCCGTTCAAGTGTGCCGAGTGCGATAAAACGTTCATACAATCCATTCATCTAACGAGACATATGAAGGTTCATACAGGCGAAATGCCATTTAAGTTGTGA
Protein Sequence: MLSSNSGENTLKSVGRGKTSPQSSQLVKRARTRAGEKSFKCVECFKSLRNSSDLRAHMRIHTGEKPFKCVECSKLFRNSGSLKVHMRFHTDEKPFKCVECDKAFKQYFELTRHMRIHTGEKPFKCVQCDITFKQSSHLTDHMRKHTGEQPFKCVECSKLFTRSSTLKEHMRIHTGEKAFKCVECFKSFTNSYKLKEHTRLHTGEKPFRCLECFTLFTNASNLNVHMRIHTGEKPFKCAECDKTFIQSIHLTRHMKVHTGEMPFKL

Sequence clustering based on sequence similarity using MMseqs2