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 5 0.077 5.6e+02 0.5 0.0 26 37 117 128 107 138 0.73

2 5 0.03 2.2e+02 1.8 0.0 22 45 159 182 152 189 0.82

3 5 0.0004 2.9 7.8 0.1 22 46 187 211 182 214 0.89

4 5 1.9e-05 0.14 12.0 0.2 21 52 214 245 210 245 0.88

5 5 0.00088 6.4 6.7 0.0 21 48 242 269 240 271 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	5	0.077	5.6e+02	0.5	0.0	26	37	117	128	107	138	0.73
2	5	0.03	2.2e+02	1.8	0.0	22	45	159	182	152	189	0.82
3	5	0.0004	2.9	7.8	0.1	22	46	187	211	182	214	0.89
4	5	1.9e-05	0.14	12.0	0.2	21	52	214	245	210	245	0.88
5	5	0.00088	6.4	6.7	0.0	21	48	242	269	240	271	0.90

Coding Sequence: ATGGATAATCACCATGATGCTGAATTTCGTCGTATGCTCGAACCCGATGTTACTATAAGAGATGCAGAAAGTGATGAAGACAGTATGGATGCacaaAAAGTTTCATTTATGGCACAAGCAATTGATGGGAGTACATCACCTGTAAAGCCCGACATATCAATAATACCGGTTAATGAGAAAAAACCGCATATTAAAATAAGACTGTTTAAAAAAGAATACTCACCAAGTAAAGAAGATGGTAAAAAGGTAAGAAGTAAATCACCGCGTACACAAGTACGATTAGTATCAAAAGATGAAATTGAACGTGCTGTTGATTCCTATCAGCGACGTAAATCTTTACCATTAGAAAAATGTCCAGTTTGTAAAAAGTTTTTTCGTCGAATGAAAACACACTTATTGAAACAcgaacaacaactacaactacaactacaacaacagcaacaacaacaacaatcgataaatcacaataatatcaatgatCCTTTAACATGTAGTTATTGTATGAAAACATTTAATACAcaaagtaatttattaatacatatGCGTACACATACAGGTGATAAACCATATGTATGCGATATATGTCAAAAAGGATTTGCACAATCATGTAATTTAGTTAATCATATGAGAATTCATACTGGTGAACGTCCATTTAAATGTCCACATTGTGAACGTGCATTTACACAATCtggtaatttaaataatcatatacGTTTACATACAGATGAGAAACCATTTAAATGTCATTTTTGTGAAAAAGCATTTGTACAATCTGGTAATCTTAATTCgcatattaaaaataatcataaatatgtAAATGAATATGATAATCAACCATTAGATGGTTTTAAATGCTAG
Protein Sequence: MDNHHDAEFRRMLEPDVTIRDAESDEDSMDAQKVSFMAQAIDGSTSPVKPDISIIPVNEKKPHIKIRLFKKEYSPSKEDGKKVRSKSPRTQVRLVSKDEIERAVDSYQRRKSLPLEKCPVCKKFFRRMKTHLLKHEQQLQLQLQQQQQQQQSINHNNINDPLTCSYCMKTFNTQSNLLIHMRTHTGDKPYVCDICQKGFAQSCNLVNHMRIHTGERPFKCPHCERAFTQSGNLNNHIRLHTDEKPFKCHFCEKAFVQSGNLNSHIKNNHKYVNEYDNQPLDGFKC

Sequence clustering based on sequence similarity using MMseqs2