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 0.0041 83 4.6 0.6 16 44 138 167 135 177 0.87

2 6 0.025 5e+02 2.1 0.2 26 48 177 198 171 203 0.85

3 6 5.6e-05 1.1 10.5 0.4 4 48 183 227 180 233 0.86

4 6 0.011 2.3e+02 3.1 0.0 21 44 256 279 248 284 0.88

5 6 0.0014 28 6.1 0.0 21 45 284 308 279 312 0.90

6 6 0.0026 52 5.2 0.0 21 44 312 335 308 340 0.89

#	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	0.0041	83	4.6	0.6	16	44	138	167	135	177	0.87
2	6	0.025	5e+02	2.1	0.2	26	48	177	198	171	203	0.85
3	6	5.6e-05	1.1	10.5	0.4	4	48	183	227	180	233	0.86
4	6	0.011	2.3e+02	3.1	0.0	21	44	256	279	248	284	0.88
5	6	0.0014	28	6.1	0.0	21	45	284	308	279	312	0.90
6	6	0.0026	52	5.2	0.0	21	44	312	335	308	340	0.89

Coding Sequence: ATGGAGGcccccggcggcggcgcggggcgcCGGCCGGAACCCGCGGGGGGAACCACGGAGCTCCTTCGACAAGGGCCTGCAGAGGGAGCGGAGAGCCCGCACGCCGGAGCTGTGCAAGTGAAGGTGGAGATCGCTGTGAAGCAGGAACCGGTGGACGAGGTGCAGGTGCCGGTAGATGAGGAGGCTGCCGAGCTGTGCGGGCCCCAAGCATCGCCACACAAGCTGGCGTTTCCGGAGCACATGTGCGTCACTGTGGAGGTGGAGTTCGAACCACGGGAGGAAGAGGAAGAGGGGGAGAGAGGGACGGCCGCCGCGAGTGGGAGCGAGACAGAGGCACACCAGCGAGGACGGGAGCCTCTCACATGCGGCGAGTGTGCGAAGACGTTTAAATCGGCGGCCATCTTGTTAGAACATTCGCGCAGCCACTCGGGTCAACGACCCTTCAGCTGCGAGCACTGTCCGCGCCGCTTTACCACCGCCGGCAACCTCAAGAGACACACACTCATCCACACCGGCATCAAGTCCTACGCCTGCGAAGTATGCAACAAAAGGTTCAGGCACTCGAACGCCCTGAAGGAGCATGAACGTCGACACACGGGGGAGAAACCGTATTCCTGCGACGTGTGCCAGAAGGAGTTCGTTGACTCTGGCAACTTGAAGAAGCACCAGCGAATACACACGGGGGATAAACCATACTCGTGCGAGACGTGCAAGAAAGAGTTCACCGGTTGGGGCAATTTGAGGGACCACCAACGTATTCACACTGGGGAGAAACCCTACGCGTGCGAAGTATGTAAAAAGGAGTTTACCGGGCTGGGGAACTTTAGGAGGCATAAACGTATTCATACCGGCGAACGACCGTTCTCTTGTGGAGTCTGCGGGCAAAAGTTCACGCAGTCCAACAGCCTGAAGGAGCACATGCGGGTACACACAGGAGAGAAACCTTACTCTTGCGGGATGTGTGAAAAAGTGTTTTCAGCGTTGGGCAGTTTGAGAAGACATGAGCGGATTCACGCGCGGATATTGGACAGCGTGTGA
Protein Sequence: MEAPGGGAGRRPEPAGGTTELLRQGPAEGAESPHAGAVQVKVEIAVKQEPVDEVQVPVDEEAAELCGPQASPHKLAFPEHMCVTVEVEFEPREEEEEGERGTAAASGSETEAHQRGREPLTCGECAKTFKSAAILLEHSRSHSGQRPFSCEHCPRRFTTAGNLKRHTLIHTGIKSYACEVCNKRFRHSNALKEHERRHTGEKPYSCDVCQKEFVDSGNLKKHQRIHTGDKPYSCETCKKEFTGWGNLRDHQRIHTGEKPYACEVCKKEFTGLGNFRRHKRIHTGERPFSCGVCGQKFTQSNSLKEHMRVHTGEKPYSCGMCEKVFSALGSLRRHERIHARILDSV

Sequence clustering based on sequence similarity using MMseqs2