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 9 0.19 1.3e+02 4.1 0.0 12 44 16 49 12 53 0.84

2 9 0.1 71 4.9 0.0 21 52 54 85 50 87 0.88

3 9 0.18 1.3e+02 4.1 0.0 21 47 82 108 80 113 0.86

4 9 0.007 4.8 8.7 0.1 21 44 110 133 107 137 0.91

5 9 2.7 1.8e+03 0.4 0.0 21 46 170 195 153 197 0.80

6 9 0.2 1.3e+02 4.1 0.0 21 46 198 223 196 231 0.89

7 9 2.2 1.5e+03 0.7 0.1 22 51 227 256 222 258 0.84

8 9 0.31 2.1e+02 3.4 0.0 21 52 254 285 250 287 0.86

9 9 4.5 3e+03 -0.3 0.0 21 44 282 305 278 309 0.86

#	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	9	0.19	1.3e+02	4.1	0.0	12	44	16	49	12	53	0.84
2	9	0.1	71	4.9	0.0	21	52	54	85	50	87	0.88
3	9	0.18	1.3e+02	4.1	0.0	21	47	82	108	80	113	0.86
4	9	0.007	4.8	8.7	0.1	21	44	110	133	107	137	0.91
5	9	2.7	1.8e+03	0.4	0.0	21	46	170	195	153	197	0.80
6	9	0.2	1.3e+02	4.1	0.0	21	46	198	223	196	231	0.89
7	9	2.2	1.5e+03	0.7	0.1	22	51	227	256	222	258	0.84
8	9	0.31	2.1e+02	3.4	0.0	21	52	254	285	250	287	0.86
9	9	4.5	3e+03	-0.3	0.0	21	44	282	305	278	309	0.86

Coding Sequence: ATGGATAACTCTAAAACATGCAGCaatgattacaaaattacagaaacTGACAAGTTTCGCAAGAAATCTCAAAGTGGTAAAGAACGACACCCGTGTTTCctgtgtgataaaacatttctcCAATACGACTACCTTCGAGGccacatgagaactcacaccGGCGAAAGACCTTACAAGTGTGTCGAGTGCTTCAAGACGTTTGCCCACTCAAGTACTTTAAAGGGCCACTTGAGAATTCACTCGGGTGAAAAACCGTACGTATGCGCggaatgtgataaaacattctcacatAGCAGTCACCTGAGAGTCCACTTGAAtactcacactggtgaaaagccgtATAAATGTGACAGTTGTGGTAAGTTATTTTCACGGTCAAGTAACCTCAGAAGACACACGAGGAGTCACACAGGTTATTTAAAGGGACTGGCGTTTTGTAAATGTGTTGAATGCGGGAAAACTTTCTCACATGCAAGTAGTTTGCATCGGCATATGAGTGTCCACACGGGTAAGAATCCATATATATGTGCCGAATGTGATATGGAGTTCTCACGTTCATGGACCCTAAGAAACCACATGAAGATTCACTCAGGTGAACAACCTTTCGAGTGTGTTGAGTGTGGTAGAACGTTTGCAAAATCCAATAACCTAACGCTTCACATGAGGATGCATACAGGCGAAATGCCTTATGTGTGTGTCGAATGTGACACCAGGTTTTCACAGTTGAGAATCCTGCAGgaccacatgaggattcacactggcgaGAAACCTTACAAGTGCGCCgggtgtgataaaacatttgctAAATCCAGCAACTTGACAGTTCACATGAGGATCCACACTGGGGAAAAGCCGTACAAGTGTTCGGAGTGCGATAAAACGTTCTCACAGCCCAGTCACCTAAAAAATCATATCAGAACTCACGCTAGTGAAAAATCTTCATAA
Protein Sequence: MDNSKTCSNDYKITETDKFRKKSQSGKERHPCFLCDKTFLQYDYLRGHMRTHTGERPYKCVECFKTFAHSSTLKGHLRIHSGEKPYVCAECDKTFSHSSHLRVHLNTHTGEKPYKCDSCGKLFSRSSNLRRHTRSHTGYLKGLAFCKCVECGKTFSHASSLHRHMSVHTGKNPYICAECDMEFSRSWTLRNHMKIHSGEQPFECVECGRTFAKSNNLTLHMRMHTGEMPYVCVECDTRFSQLRILQDHMRIHTGEKPYKCAGCDKTFAKSSNLTVHMRIHTGEKPYKCSECDKTFSQPSHLKNHIRTHASEKSS

Sequence clustering based on sequence similarity using MMseqs2