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 0.013 51 4.5 0.0 22 43 35 56 24 60 0.86

2 8 0.12 5e+02 1.3 0.0 23 44 63 84 58 91 0.86

3 8 0.00016 0.62 10.6 0.1 26 45 95 114 87 118 0.85

4 8 1.1 4.5e+03 -1.7 0.2 16 26 130 140 123 146 0.67

5 8 0.00065 2.6 8.6 0.1 22 44 185 207 179 211 0.90

6 8 0.048 1.9e+02 2.7 0.0 26 45 216 235 207 240 0.84

7 8 0.0013 5.3 7.7 0.0 22 46 241 265 237 268 0.87

8 8 1.7 6.6e+03 -2.3 0.2 27 45 274 292 272 295 0.65

#	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	0.013	51	4.5	0.0	22	43	35	56	24	60	0.86
2	8	0.12	5e+02	1.3	0.0	23	44	63	84	58	91	0.86
3	8	0.00016	0.62	10.6	0.1	26	45	95	114	87	118	0.85
4	8	1.1	4.5e+03	-1.7	0.2	16	26	130	140	123	146	0.67
5	8	0.00065	2.6	8.6	0.1	22	44	185	207	179	211	0.90
6	8	0.048	1.9e+02	2.7	0.0	26	45	216	235	207	240	0.84
7	8	0.0013	5.3	7.7	0.0	22	46	241	265	237	268	0.87
8	8	1.7	6.6e+03	-2.3	0.2	27	45	274	292	272	295	0.65

Coding Sequence: atgcataaaaatattaaatatcacGTTTGCGACGTTTGTGGTCAAAAGTTTAAGAACAAAGAGTCCTTTAAAAAACATTACGCCCAACACCAAGGATTCGTTGAACCAGCAGCGCAATGCTCGATTTGCTTTAAATGGCTTAAAAGCAAACACACTTTACGTTTGCATCGTTTTGTGCACGAAAAGAATCCAACGCCTTGTGATGTGTGCGGAAAAATGTTTGAGACCAAACATAGTTTGCGCAAGCACAAATTCTACTGGCACAAGTCGGATCTAAACTTTAGATGTAACTATTGTGAGAAAGTTTTCCGACAGGAGCGCAATTTGCAAGAGCATATGGCAATACATACGGGAATGCAGCTCTACAAGTGTCCACATTGTCAGAAAGAATCACGCtcaaaatcaaatatATGTGCTACTATATATCGTTTGAATAGCCATGTGGCAGCCGTGCACAATAATATATACCATCATATTTGTGatatttgtggcaaaaaatttaaatctaagGCCGCCTTCCAAAGACACTATGACGAACATCAAGGCATTATTGAACCACCAGCTCAATGTACTATTTGTGGGGCATGGTTAAAAAATCAACACAGTCTGCGTGTTCATCATCAAACACACGAAGATACACAGTTTGCCTGCGATGTTTGCGGTAAATTTTTCAAGACCAAAAAGAATTTGAGTCGCCACAAGGGCTATTGGCACCGACGTGAGCGTAATCTATCCTGTAGCTACTGCGACAAGGTGTTTCGGGAAAAGCGTAATCTTGACGAGCACATGGCCATGCATACAGATACAAATCTGTATAAGTGCCCCCACTGCGGCAAAGAATCGAGAtcgaaatcaaatatgtatgtgcatgttaaAAGACAGCACCCGGACGAATGGTggaaatcgaaacaggagcgtTATAATATTAAGTCCGATGACATTGTAGATGGCGTTGGTGAaagcgaaaagaaaaatcaaccaTCACAAGTAAAAGCAACATCCCCCGCACACAGTGAGGAGTTTTTAAGTGGGGAatag
Protein Sequence: MHKNIKYHVCDVCGQKFKNKESFKKHYAQHQGFVEPAAQCSICFKWLKSKHTLRLHRFVHEKNPTPCDVCGKMFETKHSLRKHKFYWHKSDLNFRCNYCEKVFRQERNLQEHMAIHTGMQLYKCPHCQKESRSKSNICATIYRLNSHVAAVHNNIYHHICDICGKKFKSKAAFQRHYDEHQGIIEPPAQCTICGAWLKNQHSLRVHHQTHEDTQFACDVCGKFFKTKKNLSRHKGYWHRRERNLSCSYCDKVFREKRNLDEHMAMHTDTNLYKCPHCGKESRSKSNMYVHVKRQHPDEWWKSKQERYNIKSDDIVDGVGESEKKNQPSQVKATSPAHSEEFLSGE

Sequence clustering based on sequence similarity using MMseqs2