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 0.0055 1.6e+02 5.1 0.1 21 43 36 58 30 64 0.84

2 10 0.00021 6.1 9.7 0.1 21 49 64 91 58 94 0.80

3 10 0.00038 11 8.8 0.3 18 45 88 115 85 119 0.88

4 10 0.057 1.7e+03 1.9 0.3 21 46 119 144 115 150 0.87

5 10 0.022 6.6e+02 3.2 0.1 21 45 147 171 143 180 0.87

6 10 0.99 2.9e+04 -2.1 0.1 21 33 175 187 171 202 0.71

7 10 0.0015 43 7.0 0.3 21 46 203 228 186 234 0.83

8 10 0.046 1.4e+03 2.2 0.0 21 43 231 253 227 258 0.86

9 10 4.1e-05 1.2 11.9 0.1 21 46 259 284 248 290 0.85

10 10 2.6e-08 0.00077 22.2 0.8 22 48 288 314 283 316 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	10	0.0055	1.6e+02	5.1	0.1	21	43	36	58	30	64	0.84
2	10	0.00021	6.1	9.7	0.1	21	49	64	91	58	94	0.80
3	10	0.00038	11	8.8	0.3	18	45	88	115	85	119	0.88
4	10	0.057	1.7e+03	1.9	0.3	21	46	119	144	115	150	0.87
5	10	0.022	6.6e+02	3.2	0.1	21	45	147	171	143	180	0.87
6	10	0.99	2.9e+04	-2.1	0.1	21	33	175	187	171	202	0.71
7	10	0.0015	43	7.0	0.3	21	46	203	228	186	234	0.83
8	10	0.046	1.4e+03	2.2	0.0	21	43	231	253	227	258	0.86
9	10	4.1e-05	1.2	11.9	0.1	21	46	259	284	248	290	0.85
10	10	2.6e-08	0.00077	22.2	0.8	22	48	288	314	283	316	0.91

Coding Sequence: ATGAGAATCCATCAAAATCCTATTTACAAAGAAAGAAACTGTCATGTGTGTAAGCGATCCTTTTTAAGACGAGACACATTACTAGTTCATCTGAGGACACATACTCAAGAACGGCCGTTTAAATGTGATATTTGCAGGGCAACATTTTCTCACTCCAGTTCCTTAGTATCCCATAAACGTATTCATTCAGGAGAAAAACCGTTTTCTTGTGATATATGCCAGCAGGTATTTCGGGAATCTGGGCAAATGTCGGCTCATCGGAGAACCCACTTTGAGAAAACGCTAAAATGTCCACAATGTGATCAATACTATGCATCTTCAAAGAACTTGCGGGCCCATCTTAGAACACATACGGGTGAAAGGCCTTATAATTGTAACCAATGTGAAAAATCATTCCGGACATCTACTGCACTAACGATGCATATCCGTGTTCATACAGGAGAACGACCTTATAAATGTTCGAACTGTCCATATGCTACGAAACAATCCGGATCATTAAAGGCTCATATGCGAACACACACTGGTGAAAGGCCATTTAAATGCGACCTTTGTGACCGAGCGTATACAGAAAAGAAACGATTAGTAACTCATTACAGGACCCACACTGGAGAACGGCCTTATAAATGTAATCATTGTGACTCTGCATTCGTTCGAAGTGATAATTTGCGTAGTCATATCAGAACACACACTGGAGAAAAGCCATTTCAATGTGAAGTTTGTAACAAGACATTTGCACAGAAAACTACTCTCAAAGCTCATGAAAAAGTTCATTCTGGGGAAAGACCTTATTCCTGTCCTTTCTGTAATTTGACCTTCCGTCAGTCAGGTACATTAGTTACGCATATGCGAGTTCATGATGGTCAGAGACCTTTCCCGTGCCAAATTTGTGATAGAACTTTCAGACAGAGTAGCAATCTTCGCCGGCACATCGAGGTAGATCATGGAGAAGTAACAGAACAGTTATTCTAA
Protein Sequence: MRIHQNPIYKERNCHVCKRSFLRRDTLLVHLRTHTQERPFKCDICRATFSHSSSLVSHKRIHSGEKPFSCDICQQVFRESGQMSAHRRTHFEKTLKCPQCDQYYASSKNLRAHLRTHTGERPYNCNQCEKSFRTSTALTMHIRVHTGERPYKCSNCPYATKQSGSLKAHMRTHTGERPFKCDLCDRAYTEKKRLVTHYRTHTGERPYKCNHCDSAFVRSDNLRSHIRTHTGEKPFQCEVCNKTFAQKTTLKAHEKVHSGERPYSCPFCNLTFRQSGTLVTHMRVHDGQRPFPCQICDRTFRQSSNLRRHIEVDHGEVTEQLF

Sequence clustering based on sequence similarity using MMseqs2