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 0.047 1.2e+02 2.4 0.3 22 43 35 56 28 65 0.83

2 8 0.03 75 3.1 0.0 25 48 65 88 57 91 0.82

3 8 0.0001 0.27 10.9 0.0 25 44 94 113 87 117 0.86

4 8 0.72 1.8e+03 -1.4 0.1 16 26 130 140 122 150 0.65

5 8 0.00042 1.1 9.0 0.1 22 44 185 207 175 212 0.90

6 8 0.014 35 4.2 0.0 26 45 216 235 207 240 0.85

7 8 0.0012 3.1 7.5 0.1 22 46 241 265 238 267 0.86

8 8 0.18 4.5e+02 0.6 0.2 26 48 273 295 268 297 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	0.047	1.2e+02	2.4	0.3	22	43	35	56	28	65	0.83
2	8	0.03	75	3.1	0.0	25	48	65	88	57	91	0.82
3	8	0.0001	0.27	10.9	0.0	25	44	94	113	87	117	0.86
4	8	0.72	1.8e+03	-1.4	0.1	16	26	130	140	122	150	0.65
5	8	0.00042	1.1	9.0	0.1	22	44	185	207	175	212	0.90
6	8	0.014	35	4.2	0.0	26	45	216	235	207	240	0.85
7	8	0.0012	3.1	7.5	0.1	22	46	241	265	238	267	0.86
8	8	0.18	4.5e+02	0.6	0.2	26	48	273	295	268	297	0.85

Coding Sequence: ATGCACAAATATACAAAATATCATGTTTGCGACGTTTGTGGTCAAAAGTATAAAAACAAAGAATCATTCAAAAATCATTATGCCAAACATCAAGGTATCATTGAACCAGCCGCACAATGTTCCATATGCAATAGGTGGCTTAAAAACAAGCACAGTCTGAGGTTGCATCGTTTTGTTCATGAGAAACACACAACACCGTGTGACATATGTGGAAAGGTGTTTGATACCAAACATAGTCTGCGCAAACACAAGTCCTACTGGCACAAGTCCGACTTGAATTTACAGTGTAACTTTTGTGAGAAAGTTTTTCGACAAGAGCGCAATCTGCAAGAGCACATGGCAACGCACACTGGAGTGCAGCTTTATAAATGTCCACATTGTCAAAAAGAGTCACGTTCTAAATCGAATATATGTGCAACTATATATCGTTTGCGTAATCATATTGCATCCGTACACAATAATATATACCACCATATTTGTGACATTTGTGGAAAGAAATTCAAATCAAAGACATCCTTCCAAAAGCACTACGACGAACATCAAGGCATTGTTGAACCACCCGCTCAGTGTACAATCTGTGGTGCATGGTTGAAAAATCAACACAGCCTACGTGTACATCATCAAACACATGAAGACACACAGTTTGCCTGCGATATTTGTGGTAAATTCTTCAAAACTAAAAAGAATTTGAGTCGTCACAAAGGCTATTGGCATCGGCGAGAGCGCAATCTTTCGTGTAGCTATTGCGACAAAGTGTTTCGTGAAAAACGCAATCTTGACGAACACATGGCCATGCATACAGACACAAATCTGTATACATGTCCGCATTGTGGCAAAGAGTCAAGGTCCAAATCAAATATGTATGTACATATAAAACGACAGCATCCAGATGAATGGTGGAAATCAAAACAGGAACGTTATAAAGTAAAACCCGAAGAAGGTGGTCAAGCAGACGGAGAAGATGAGGTAAAAGAAAAGTCACCAGTAATAGACGCACCAGTTACATCAACTCTAGCACAGGAATGTATAAATACGGAATAA
Protein Sequence: MHKYTKYHVCDVCGQKYKNKESFKNHYAKHQGIIEPAAQCSICNRWLKNKHSLRLHRFVHEKHTTPCDICGKVFDTKHSLRKHKSYWHKSDLNLQCNFCEKVFRQERNLQEHMATHTGVQLYKCPHCQKESRSKSNICATIYRLRNHIASVHNNIYHHICDICGKKFKSKTSFQKHYDEHQGIVEPPAQCTICGAWLKNQHSLRVHHQTHEDTQFACDICGKFFKTKKNLSRHKGYWHRRERNLSCSYCDKVFREKRNLDEHMAMHTDTNLYTCPHCGKESRSKSNMYVHIKRQHPDEWWKSKQERYKVKPEEGGQADGEDEVKEKSPVIDAPVTSTLAQECINTE

Sequence clustering based on sequence similarity using MMseqs2