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 10 2.4 4.3e+02 0.8 0.3 24 44 33 53 22 57 0.78

2 10 0.028 5 7.0 0.0 21 49 58 86 53 89 0.86

3 10 0.12 22 4.9 0.1 21 44 86 109 84 115 0.90

4 10 1.1 2e+02 1.9 0.0 21 46 114 139 111 145 0.85

5 10 0.19 34 4.3 0.0 21 46 142 167 137 174 0.85

6 10 0.22 41 4.1 0.1 21 47 170 196 166 201 0.86

7 10 0.001 0.18 11.6 0.0 21 52 198 229 194 230 0.88

8 10 0.0027 0.5 10.2 0.1 21 46 226 251 223 255 0.92

9 10 0.00012 0.023 14.5 0.1 21 45 254 278 252 285 0.90

10 10 0.5 91 3.0 0.0 21 45 282 306 278 311 0.88

#	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	10	2.4	4.3e+02	0.8	0.3	24	44	33	53	22	57	0.78
2	10	0.028	5	7.0	0.0	21	49	58	86	53	89	0.86
3	10	0.12	22	4.9	0.1	21	44	86	109	84	115	0.90
4	10	1.1	2e+02	1.9	0.0	21	46	114	139	111	145	0.85
5	10	0.19	34	4.3	0.0	21	46	142	167	137	174	0.85
6	10	0.22	41	4.1	0.1	21	47	170	196	166	201	0.86
7	10	0.001	0.18	11.6	0.0	21	52	198	229	194	230	0.88
8	10	0.0027	0.5	10.2	0.1	21	46	226	251	223	255	0.92
9	10	0.00012	0.023	14.5	0.1	21	45	254	278	252	285	0.90
10	10	0.5	91	3.0	0.0	21	45	282	306	278	311	0.88

Coding Sequence: ATGGCTGTGAATTCTTGGGAATATCTCGACTGCATCAAGACGTTCAGTAAAAAATCGATCCTttcacgtcgtcgtcgagtCCATCAGATGGATGGGCagttcgagtgcacagtttgcacaAGAAAGTTCACTCGGAGAGATAATCTAAATAGACATATCAGACAAcatacaggggagaagcctttcgagtgcgcaGTTTGCTTTAAGAAGTTCAGTGAAACTGATAAACTCCGAATTCATCTTAGGATTcatacaggggagaagccatttgagtgcgcagtttgcaacaagaagttcaatCAAGCTAGTCACCTTCGAACTCATCATAGAATCCATACAGGGGAGAGGCCTTTCGAGTGCGCACTTTGTAATAAGAAGTTCAGTGAAACTGGCTCACTCCGAATTCATCTTAGAACCcatacaggggagaagccctacgagtgcacagtttgcaacaagacGTTCAATCGAGCTGATCACCTTCGATCTCATGTTAAAACTCATACTGGGGAGAAGCCATTCGAGTGCACAGTCTGCGAAAGGAAGTTATGTAGTGCAAGTAGTCTCCGAAGTCATCTTAACACCCACACAGGAGAGAAGCCTTACGACTGCTCAGTTTGCAAAAAGATGTTTAGGTCTACACAAAGTCTCCGAGCTCATCTTAAAATCcacacaggggagaagccATACGAGTGCTCAGTTTGCAAAAAGATGTTTAGGTCTACTCAAAGTCTCCGAGCTCATCTCAAAATCcacacaggggagaagccATACGAGTGCTCAGTTTGCAACAAGATGTTTCGTCAAGCAAGTGATCTTCGAAAACATCTTAGAACCCACACAGGAGAGAGGCCTTTCGAGTGTACAGTTTGCAGTAAGAAGTTTGGTCAAGTAGCCACTCTCAAAACTCATCTTAAAACCCACACATCGAAGGAATAA
Protein Sequence: MAVNSWEYLDCIKTFSKKSILSRRRRVHQMDGQFECTVCTRKFTRRDNLNRHIRQHTGEKPFECAVCFKKFSETDKLRIHLRIHTGEKPFECAVCNKKFNQASHLRTHHRIHTGERPFECALCNKKFSETGSLRIHLRTHTGEKPYECTVCNKTFNRADHLRSHVKTHTGEKPFECTVCERKLCSASSLRSHLNTHTGEKPYDCSVCKKMFRSTQSLRAHLKIHTGEKPYECSVCKKMFRSTQSLRAHLKIHTGEKPYECSVCNKMFRQASDLRKHLRTHTGERPFECTVCSKKFGQVATLKTHLKTHTSKE

Sequence clustering based on sequence similarity using MMseqs2