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 0.042 2.2e+02 1.9 0.0 25 46 37 58 29 64 0.81

2 10 0.021 1.1e+02 2.9 0.1 21 44 61 84 57 92 0.82

3 10 0.3 1.6e+03 -0.9 0.1 21 43 89 111 81 115 0.80

4 10 0.00056 2.9 7.9 0.0 21 45 117 141 107 149 0.83

5 10 0.016 87 3.2 0.2 21 43 145 167 140 172 0.87

6 10 0.00016 0.87 9.6 0.5 11 44 162 196 160 200 0.76

7 10 0.018 98 3.0 0.0 21 43 201 223 197 228 0.89

8 10 0.012 61 3.7 0.0 21 52 229 260 226 261 0.85

9 10 0.17 9.3e+02 -0.1 0.1 23 43 259 279 253 283 0.84

10 10 0.002 11 6.1 0.0 21 43 285 307 276 312 0.87

#	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	0.042	2.2e+02	1.9	0.0	25	46	37	58	29	64	0.81
2	10	0.021	1.1e+02	2.9	0.1	21	44	61	84	57	92	0.82
3	10	0.3	1.6e+03	-0.9	0.1	21	43	89	111	81	115	0.80
4	10	0.00056	2.9	7.9	0.0	21	45	117	141	107	149	0.83
5	10	0.016	87	3.2	0.2	21	43	145	167	140	172	0.87
6	10	0.00016	0.87	9.6	0.5	11	44	162	196	160	200	0.76
7	10	0.018	98	3.0	0.0	21	43	201	223	197	228	0.89
8	10	0.012	61	3.7	0.0	21	52	229	260	226	261	0.85
9	10	0.17	9.3e+02	-0.1	0.1	23	43	259	279	253	283	0.84
10	10	0.002	11	6.1	0.0	21	43	285	307	276	312	0.87

Coding Sequence: ATGAATTTGGACGAGACATCTAACTGCTCAAGGAAAAAACCACTGACTGATACCTATGACAAAATGTATACAGCAACCAATTTAACGGCACATAACGAAGAAAAGCTGTATAAATGTGATATATGTGAAAAAAGGATAGCTACAGCATCAGATTTAACAAAGCATTTAAGGACACATACCGGAGAAAAGCCGTATAAATGTAATATATGTGATCAAGCCTTTTCTCAAGCAAATTATTTAACTGTGCATACAAGGACACATAATGGAGAAAAGCCGTACAGATGTAATTTCTGTGATAAAAGGTTTTCTACATCATCAGCATTAACAAAGCATACAAGAACACATACCGGAGACAAGCCTTATAAATGTGATATTTGTGATCAAGCTTTTTCTCAGAAAACAAATTTAAAAAAACATACAAGGACACATACTGGAGAAAAACCGTATGAATGTGATATCTGTAATCAAAGTTTTTCCCAACCACATACTTTAAAAACCCATCAAAGGACACATACCGGTGAAATTGCGTATAAATGTGAAATCTGTGATCGTGCCTTTTCTCAAGCATATAATTTAAGAAGGCATACAATGACACATACCGGAGAAAAACCTTATAAATGTGATATCTGTGATAAGGGGTTTTGTACATCATTAGATTTAACAAGGCATACAATGACACATACCGGAGAAACACCATATAAATGTGGTATCTGTGATAAGGGGTTTTGTACATCATTAGAGTTAACAAGGCATACAAGGATACATACCGGTGTTAAGCCGTATAAATGTGATATATGTGATCAATCCTTTTCTCAAGCACATCATTTAACGGGGCATACAAGGACACATACCGGAGAAAAGCCTTATAAATGTGATATCTGCGATCAAGCTTTTTCTCAGAAAACAAATTTAAATACTCATAAAAGAACACATACCGGTATAGAGCCGTATAAATATGTTATTTGTGATTTAGCGTTTTCTAAAGCATCAAATTAA
Protein Sequence: MNLDETSNCSRKKPLTDTYDKMYTATNLTAHNEEKLYKCDICEKRIATASDLTKHLRTHTGEKPYKCNICDQAFSQANYLTVHTRTHNGEKPYRCNFCDKRFSTSSALTKHTRTHTGDKPYKCDICDQAFSQKTNLKKHTRTHTGEKPYECDICNQSFSQPHTLKTHQRTHTGEIAYKCEICDRAFSQAYNLRRHTMTHTGEKPYKCDICDKGFCTSLDLTRHTMTHTGETPYKCGICDKGFCTSLELTRHTRIHTGVKPYKCDICDQSFSQAHHLTGHTRTHTGEKPYKCDICDQAFSQKTNLNTHKRTHTGIEPYKYVICDLAFSKASN

Sequence clustering based on sequence similarity using MMseqs2