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 0.0073 92 4.3 0.0 25 45 56 76 40 79 0.80

2 5 3.3e-07 0.0041 18.2 0.2 21 49 80 108 78 111 0.92

3 5 0.012 1.5e+02 3.6 0.0 21 44 137 160 132 165 0.87

4 5 0.00079 9.8 7.4 0.2 18 48 190 220 182 223 0.91

5 5 0.097 1.2e+03 0.7 0.1 23 37 250 264 245 274 0.80

#	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	0.0073	92	4.3	0.0	25	45	56	76	40	79	0.80
2	5	3.3e-07	0.0041	18.2	0.2	21	49	80	108	78	111	0.92
3	5	0.012	1.5e+02	3.6	0.0	21	44	137	160	132	165	0.87
4	5	0.00079	9.8	7.4	0.2	18	48	190	220	182	223	0.91
5	5	0.097	1.2e+03	0.7	0.1	23	37	250	264	245	274	0.80

Coding Sequence: atgagtACGAGTGGTTTAAAAAGGTCTTACTCTAAAGACGACGCAAGCAGTTCATTGCGAGACAGTGGAATATCAATTTCTGGAGAACTTTCGGAAAGTGAACCAGAAAGCAGTAAAAGTTTGGGTAATAAGAAGAAAGCAAGACGATTAATTACTGCTAAAAATTATGAATGCGCcgtttgtggaaaaaaattcggTGGTAGTACTGATCTGCGACGTCATCTTCTTATTCATTCCGACGAGAAACCGTACACATGTGCAATATGTCAGAAATCCTATAGGCAAGAagtgaatttgaaaaatcatatGAAGATAGCACACACCAGTCAGAGAGAGTTTATGTGTTCTTTTTGTCGAAGGCCATTTCCATTAAAGCAGagattaaaatttcatttgcgGATTCATACCGGAGAGAAGCCTTATTCATGCCCAAAATGTGCTAAAACTTTTGCCCGAGGGGGACAACTTCAGCAGCATTTGGCTACTCACgacaagataaataaaaaatcatctgATATAGGTCGTTCTACATTCTCAAATGAGAAAAGTCTAAGACTACATATGGAGCGTCATGAAAATGAGCATAGTAATAAGTGTCATATATGTAACGAACTATTTTCAACTGACAAAAGTATGCGAGTGCATTTCAAATTGAAACATGCAAAAATAAAGGAATTAGAATGTCAATTATGTGACAAAACTGTTATGGATGACATGGAGAGTCATATGAAAATTCATACTCCGGCTAAGCCGTTTGAATGTGAAATATGTAAGGCTACTTTTGCACAAAAAGGACAGTATAATATACATCAGAGAACGCATACAGGAGAACGACCATATCAGTGCAGAGTAAGTAGATATAGATGTAAATAA
Protein Sequence: MSTSGLKRSYSKDDASSSLRDSGISISGELSESEPESSKSLGNKKKARRLITAKNYECAVCGKKFGGSTDLRRHLLIHSDEKPYTCAICQKSYRQEVNLKNHMKIAHTSQREFMCSFCRRPFPLKQRLKFHLRIHTGEKPYSCPKCAKTFARGGQLQQHLATHDKINKKSSDIGRSTFSNEKSLRLHMERHENEHSNKCHICNELFSTDKSMRVHFKLKHAKIKELECQLCDKTVMDDMESHMKIHTPAKPFECEICKATFAQKGQYNIHQRTHTGERPYQCRVSRYRCK*

Sequence clustering based on sequence similarity using MMseqs2