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 8 0.82 3.7e+02 2.2 0.1 25 44 62 81 49 85 0.79

2 8 0.029 13 6.8 0.2 21 45 86 110 83 113 0.90

3 8 0.0002 0.089 13.8 0.1 21 52 114 145 110 147 0.84

4 8 0.9 4.1e+02 2.1 0.1 21 41 142 162 138 174 0.69

5 8 1.8 8.3e+02 1.1 0.2 21 32 170 181 165 196 0.72

6 8 0.029 13 6.8 0.0 21 47 198 224 190 231 0.84

7 8 0.048 22 6.1 0.1 22 45 227 250 223 254 0.90

8 8 0.0003 0.14 13.2 1.0 21 45 254 278 250 281 0.85

#	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	8	0.82	3.7e+02	2.2	0.1	25	44	62	81	49	85	0.79
2	8	0.029	13	6.8	0.2	21	45	86	110	83	113	0.90
3	8	0.0002	0.089	13.8	0.1	21	52	114	145	110	147	0.84
4	8	0.9	4.1e+02	2.1	0.1	21	41	142	162	138	174	0.69
5	8	1.8	8.3e+02	1.1	0.2	21	32	170	181	165	196	0.72
6	8	0.029	13	6.8	0.0	21	47	198	224	190	231	0.84
7	8	0.048	22	6.1	0.1	22	45	227	250	223	254	0.90
8	8	0.0003	0.14	13.2	1.0	21	45	254	278	250	281	0.85

Coding Sequence: ATGGAACGCATCGACGATGTATCGGAACCTCTCAATAATTCTAGTAGCTGTGAAATTAAGGTCGAAGATGAGAAGTTTAATTTAGAAGATTTACATCACTCCATAGACATCAAAGACGAGATCGAAAGCGATGCAGAACAACTAGCACTGGAGAAACCCGTAAGAAAAACTAAAAACTTAAATTTTATATGTCAGTTTTGTGATTATAAATGTGAACAGAAATCAAATTTGAAAAAACATTTAATAACTCACACAGGCGAAAAACCTTTTGTTTGTGAGATTTGTGACTATAAATGTGCACAAAGAACAAATTTAAAAATACATTTGAGAACTCACACAGGTGAAAAACCTTTTACTTGTGATATTTGCTACTATAAATTTTCACTAAGATCACATTTAAAAAGACATTTAAGTACTCACACAGGCGAAAAACCTTTTGTTTGTGAGATTTGTGACTATAAATGTGCACGAAAAACACAGTTAAAAATACATTTTAGAACTCATACAGGCGAGAAACCTTTTGCTTGTGAGATTTGTGACTATAAATGTGCGCACAGAGAAAGTTTAAAAAGTCATTTCAAAACTCACACAGGCGAGAAACCTTTTGTTTGTGTGATTTGTGATTATAAATGTGCACAAAAAGCCGATTTGAAAAAACATTTAATAACTCACACAGGCGATAAACCTTTTGTTTGTGAGATTTGTGACTATAAATGTGCACAAAGAACAAATTTAAAAACACATTTGAGAACTCACACAGGTGAAAAACCTTTTACTTGTGATATTTGCTACTATAAATGTTCACGAAGATCACATTTAAAAAGACATTTAAGAACTCACAGGCGATAA
Protein Sequence: MERIDDVSEPLNNSSSCEIKVEDEKFNLEDLHHSIDIKDEIESDAEQLALEKPVRKTKNLNFICQFCDYKCEQKSNLKKHLITHTGEKPFVCEICDYKCAQRTNLKIHLRTHTGEKPFTCDICYYKFSLRSHLKRHLSTHTGEKPFVCEICDYKCARKTQLKIHFRTHTGEKPFACEICDYKCAHRESLKSHFKTHTGEKPFVCVICDYKCAQKADLKKHLITHTGDKPFVCEICDYKCAQRTNLKTHLRTHTGEKPFTCDICYYKCSRRSHLKRHLRTHRR

Sequence clustering based on sequence similarity using MMseqs2