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 0.31 3.8e+03 0.1 0.3 26 44 114 132 98 136 0.87

2 6 0.039 4.8e+02 3.0 0.0 23 44 147 168 141 172 0.87

3 6 0.0055 69 5.7 0.1 20 47 172 199 165 204 0.80

4 6 3.9e-05 0.48 12.6 0.1 21 46 201 226 193 232 0.86

5 6 1.2 1.6e+04 -1.9 0.0 26 44 234 252 230 256 0.83

6 6 7.3e-05 0.92 11.7 0.0 21 46 257 282 252 287 0.90

#	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	0.31	3.8e+03	0.1	0.3	26	44	114	132	98	136	0.87
2	6	0.039	4.8e+02	3.0	0.0	23	44	147	168	141	172	0.87
3	6	0.0055	69	5.7	0.1	20	47	172	199	165	204	0.80
4	6	3.9e-05	0.48	12.6	0.1	21	46	201	226	193	232	0.86
5	6	1.2	1.6e+04	-1.9	0.0	26	44	234	252	230	256	0.83
6	6	7.3e-05	0.92	11.7	0.0	21	46	257	282	252	287	0.90

Coding Sequence: ATGTCGCTGGGAGCGCGCGTGGAGGAGCCCGGGTGCGCGGGGATGGAGGGAGAGCAGCCTGTGAGGCGGGAGCAGGTGTCTGTAAAAGAGGAGCCGGTGTGTGCGTGGGAGCCCGCGGGCTCCAGCGAGCTGCTCCACCAGGAGTTCAAGTATGAAGTCAAATTGGAGCCCGAGTGGGTGCCGGCCGGGACGCTTCGTGACTACCCCAGCCCCTCGTTGCTCGCGTCTCAGCCCCGTCCCCCCCCGCACCGTCCCCCCCCGCaccgcgcggccggcgcgcccGCGCGCGCTGCACGGCAACCAAACGCCGCCCCCCACGCCGCGGTGATCAAAACTTACGTGTGCCACGCTTGCGGCGAAGTATTCATACAAAAACATCATTTAATCCGCCATGTTTCGTTCTGTCAGGCCCCCATCAACGAGCAGGATACAATTAAAAAGCCATTCTCGTGCGAAATATGTAAAAAGGAATTCTCACAGTCGGGTCATTTGACGGAGCACGTGAGAACACATACTGGTGAAAAGCCCTTTTCCTGCGAAGTATGTAAAAGGGTTTTCACGAACGCCAGCCATTTGAAGAATCATACACGAATCCACTCAGGAGAAAAGCCTTATGCCTGTGAGATATGTAATAAAGGGTTTGCACAATTAAGTAATTTAAAGAGACATAAGGAAGTGCACCTGGGAACAAGATTGTTTTCTTGCGAAATTTGTAATAAAGAGTTCACGCAATTGGGTCATTTGAAGAATCACATAAAAACACACACTGGAGAAAAGCCCTACGCCTGTGGAATATGTAAAAAAGGTTTCGCGCAACTGAGCAATTTAAAGAGACACGAAGAAATCCATGCAGGGAAAAAGGCTTAA
Protein Sequence: MSLGARVEEPGCAGMEGEQPVRREQVSVKEEPVCAWEPAGSSELLHQEFKYEVKLEPEWVPAGTLRDYPSPSLLASQPRPPPHRPPPHRAAGAPARAARQPNAAPHAAVIKTYVCHACGEVFIQKHHLIRHVSFCQAPINEQDTIKKPFSCEICKKEFSQSGHLTEHVRTHTGEKPFSCEVCKRVFTNASHLKNHTRIHSGEKPYACEICNKGFAQLSNLKRHKEVHLGTRLFSCEICNKEFTQLGHLKNHIKTHTGEKPYACGICKKGFAQLSNLKRHEEIHAGKKA

Sequence clustering based on sequence similarity using MMseqs2