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 7 0.00054 3 8.3 0.0 16 48 73 105 64 108 0.87

2 7 0.011 60 4.2 0.3 21 45 109 133 102 137 0.84

3 7 0.0084 47 4.5 0.8 17 45 133 161 129 164 0.86

4 7 0.0071 40 4.8 0.9 17 45 161 189 157 193 0.86

5 7 0.0024 13 6.3 0.4 18 44 190 216 188 220 0.91

6 7 0.0011 6.3 7.3 0.1 21 44 221 244 217 249 0.89

7 7 0.0057 32 5.0 0.1 21 46 249 274 246 280 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	7	0.00054	3	8.3	0.0	16	48	73	105	64	108	0.87
2	7	0.011	60	4.2	0.3	21	45	109	133	102	137	0.84
3	7	0.0084	47	4.5	0.8	17	45	133	161	129	164	0.86
4	7	0.0071	40	4.8	0.9	17	45	161	189	157	193	0.86
5	7	0.0024	13	6.3	0.4	18	44	190	216	188	220	0.91
6	7	0.0011	6.3	7.3	0.1	21	44	221	244	217	249	0.89
7	7	0.0057	32	5.0	0.1	21	46	249	274	246	280	0.85

Coding Sequence: ATGGCACACACGATTAACGTGGGCTCCGTCAAGGAGGAGCACTGTGAGTCAACTTGCAATATGTTTAAAGCCCAGGATTGGCAGCTGACGATGCGACACAGGGACCTGGGTCTGGTTAAGATCGAGCAGGACATGAGCTTTGTGTGGCAAAGCAGCCCCAGTGTCACACTGGACGGCAAGGACCGACAACCAGAGAAGCAGGCCCAGAAAAAATTCCAGCACGGGTCAGCCAGCGAGAAGCCCTTCAAGTGCGCACACTGCCCCAAGGACTTTGCCACCAGCAGTAATCTCAAGGTGCATCTGACTCGCACACACTCCGGAGATCGGGAGCGCCCGTTTTTGTGCCCCAACTGCCCCAAGTCGTTTGCGACCAATGATAATCTGCAGAAGCACATACGCAGGCATTCGAGCGAGCGCAACCTCAACTGTCCACACTGCCCCAAGGCCTTTGCCACAAAGGATAATCTGCAGAAACACATACGCCGCCACTCGAGCGAGCGCAACCTCATCTGTCCGCATTGTCCCAAGGCATTCGCGACCAACGACAATCTGCAGAAGCACATACGCCGGCACTCGAGCGAGCGCACCTTAAATTGTCCACACTGCCCGAAGGCATTTGCCACCAATGATAATCTGCAGCGGCATATACGCGGTCATACGGGTGAGCGACCTTTCAAGTGTCCCTATTGCCCGAAACCCTTTGCCCAAAACAGAGATCTCAAAGCGCACATCCTAGAGCATACGGGCGAGAAGCCCTTTAAGTGTCCATTCTGCCCGAAGGAGTGCGTCCGCAGCGAGGGCCTAAAGAAACACATAATGCGCCTGCACAAGGACAAGGACATCGAACCCGAGCAACTACTGATGGCGATCAAGCCGTGA
Protein Sequence: MAHTINVGSVKEEHCESTCNMFKAQDWQLTMRHRDLGLVKIEQDMSFVWQSSPSVTLDGKDRQPEKQAQKKFQHGSASEKPFKCAHCPKDFATSSNLKVHLTRTHSGDRERPFLCPNCPKSFATNDNLQKHIRRHSSERNLNCPHCPKAFATKDNLQKHIRRHSSERNLICPHCPKAFATNDNLQKHIRRHSSERTLNCPHCPKAFATNDNLQRHIRGHTGERPFKCPYCPKPFAQNRDLKAHILEHTGEKPFKCPFCPKECVRSEGLKKHIMRLHKDKDIEPEQLLMAIKP

Sequence clustering based on sequence similarity using MMseqs2