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 0.039 1.5e+02 2.7 0.7 17 36 17 36 11 47 0.74

2 8 0.0002 0.77 10.0 0.0 21 43 49 71 44 76 0.90

3 8 0.0036 14 6.0 0.0 21 43 77 99 72 104 0.86

4 8 0.0037 14 6.0 0.0 21 43 105 127 99 132 0.86

5 8 0.026 1e+02 3.3 0.0 21 43 133 155 128 159 0.84

6 8 0.0002 0.77 10.0 0.1 21 43 161 183 153 188 0.88

7 8 0.0074 29 5.0 0.0 21 43 189 211 184 215 0.86

8 8 0.0011 4.4 7.6 0.0 21 43 217 239 214 243 0.91

#	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	0.039	1.5e+02	2.7	0.7	17	36	17	36	11	47	0.74
2	8	0.0002	0.77	10.0	0.0	21	43	49	71	44	76	0.90
3	8	0.0036	14	6.0	0.0	21	43	77	99	72	104	0.86
4	8	0.0037	14	6.0	0.0	21	43	105	127	99	132	0.86
5	8	0.026	1e+02	3.3	0.0	21	43	133	155	128	159	0.84
6	8	0.0002	0.77	10.0	0.1	21	43	161	183	153	188	0.88
7	8	0.0074	29	5.0	0.0	21	43	189	211	184	215	0.86
8	8	0.0011	4.4	7.6	0.0	21	43	217	239	214	243	0.91

Coding Sequence: ATGTGTGATAAATCATTCACTCAGAATAGTAATTTAACAGCACATCGTCACACGCACACGTCTGAAAAACCATACTCATGTAAAGTTTGTAGCAAATCGTGTGCTCACAGAAATAACATGGTGGTTCATCAGCGAATCCACAACGGAGAGAAACCATACTCATGTGACATTTGTGGCAAATCGTTCTCTCAGAGCAATAACCTAAAGGTGCATCAGCGAACGCACACAGGAGAAAAACCATACTCATGTGACATTTGTGACAAATTGTTCTCTCAAAGCAATAGCCTTGTGATTCATCAACGAACGCACACAGGAGAAAAACCATACTCATGTGACATTTGTGACGAATTGTTCTCTCAAAGCAATAGCCTTGTGATTCATCAACGAACGCACACAGGAGAAAAACCATACTCATGTGACATTTGTGGCAAATCGTTTGCTCACAGCAATAGCCTAAAGGTACATCAGCGAACGCACACGGGAGAAAGACCATACTCATGTGACATTTGTGGCAAATCGTTCTCTCAAAGCAATAACCTAAAGGTGCATCAGCGAACGCACACGGGAGAAAAACCATACTCATGTGACATTTGTGACAAATTGTTCTTTCAAAGCAATAGCCTTGTGATTCATCAAGGAACACACACAGGAGAAAAACCATATTCATGTGACATTTGTGGCAAATTGTTTGCTCAAAGCAGTAGCTTGAAGAATCATCACCGAACAAACACGGGAGAGAATCCATGA
Protein Sequence: MCDKSFTQNSNLTAHRHTHTSEKPYSCKVCSKSCAHRNNMVVHQRIHNGEKPYSCDICGKSFSQSNNLKVHQRTHTGEKPYSCDICDKLFSQSNSLVIHQRTHTGEKPYSCDICDELFSQSNSLVIHQRTHTGEKPYSCDICGKSFAHSNSLKVHQRTHTGERPYSCDICGKSFSQSNNLKVHQRTHTGEKPYSCDICDKLFFQSNSLVIHQGTHTGEKPYSCDICGKLFAQSSSLKNHHRTNTGENP

Sequence clustering based on sequence similarity using MMseqs2