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 9 0.026 4.8 7.1 0.2 21 46 32 57 24 63 0.82

2 9 0.022 4.1 7.3 0.1 22 46 61 85 57 91 0.86

3 9 0.1 19 5.2 0.0 22 46 89 113 84 119 0.85

4 9 0.2 36 4.2 0.0 22 47 117 142 112 148 0.82

5 9 0.026 4.8 7.0 0.0 22 46 145 169 140 175 0.85

6 9 0.13 24 4.8 0.1 22 46 173 197 168 203 0.83

7 9 0.011 2.1 8.2 0.1 22 46 201 225 196 231 0.84

8 9 0.00065 0.12 12.2 0.1 22 46 229 253 224 259 0.85

9 9 0.0011 0.21 11.4 0.0 22 45 257 280 252 283 0.90

#	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	9	0.026	4.8	7.1	0.2	21	46	32	57	24	63	0.82
2	9	0.022	4.1	7.3	0.1	22	46	61	85	57	91	0.86
3	9	0.1	19	5.2	0.0	22	46	89	113	84	119	0.85
4	9	0.2	36	4.2	0.0	22	47	117	142	112	148	0.82
5	9	0.026	4.8	7.0	0.0	22	46	145	169	140	175	0.85
6	9	0.13	24	4.8	0.1	22	46	173	197	168	203	0.83
7	9	0.011	2.1	8.2	0.1	22	46	201	225	196	231	0.84
8	9	0.00065	0.12	12.2	0.1	22	46	229	253	224	259	0.85
9	9	0.0011	0.21	11.4	0.0	22	45	257	280	252	283	0.90

Coding Sequence: ATGCCTCCAAGAAAGAAGAGGATGGGACAAGACAACGTTTGCAGAGATGTCATCGACGGCCATGGTCTTCCGGCCGCTGCCGGGGCCCGTTCAGAGGACAAGCCTTCCGTGTGCGTTTTGTGCCACAAGCAGCTCTCTTCTGACACGAGTCTGCGAAGACATTACCAAACCCATACAGGGGATAAACCTTTCGAGTGTGCAATTTGCACCAGAAAGTTCACCGAGGCAGGTACTCTCAGGAGACATCTCCGGACCCATACAGGGGATAAACCTTTTGAGTGTACCATTTGCACCAAAAAGTTCGCTCAGGAAGGTACTCTCAGGATACATCTTCGAACCCATACAGGGGATAAACCTTATGAGTGTGCAATTTGCACCAAAAAGTTCATCAAGGCATCTGATCTCAGGATACACCTCCGAACCCATACAGGGGATAAACCTTTTGAGTGTACAATTTGCACCAAAAAGTTCACTCAGGCAGGTACTCTCAGGACACATCTCCGAACCCATACAGGGGATAAACCTTATGAGTGTGCAATTTGCACCACAAAGTTCATCAAGGTATCTGATCTCAGGACACATCTCCGAACCCATACAGGGGATAAACCTTACCAGTGTACAATTTGCACCAAAAAGTTCATCGAGGCATCTGATCTCAGGAGACACCTCCGAACCCATACAGGGGATAAACCTTTCCAGTGTACAATTTGCACCAAAAAGTTCGCCCAGTCAGGTAATCTCAGGATACACCTCCGAACCCATACAGGGGATAAACCTTTTGAGTGTACAATTTGCACCAAAAAGTTCACCCAGTCAGGTAATCTCAGGATACACCTCCGAACCCATACGGGGGATTAA
Protein Sequence: MPPRKKRMGQDNVCRDVIDGHGLPAAAGARSEDKPSVCVLCHKQLSSDTSLRRHYQTHTGDKPFECAICTRKFTEAGTLRRHLRTHTGDKPFECTICTKKFAQEGTLRIHLRTHTGDKPYECAICTKKFIKASDLRIHLRTHTGDKPFECTICTKKFTQAGTLRTHLRTHTGDKPYECAICTTKFIKVSDLRTHLRTHTGDKPYQCTICTKKFIEASDLRRHLRTHTGDKPFQCTICTKKFAQSGNLRIHLRTHTGDKPFECTICTKKFTQSGNLRIHLRTHTGD

Sequence clustering based on sequence similarity using MMseqs2