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 0.098 39 4.5 0.0 21 44 14 37 3 45 0.84

2 10 0.53 2.1e+02 2.2 0.1 22 45 77 100 67 107 0.83

3 10 0.28 1.1e+02 3.1 0.4 20 44 103 127 96 131 0.77

4 10 0.038 15 5.8 0.0 10 50 120 161 116 164 0.79

5 10 0.57 2.2e+02 2.0 0.0 21 44 160 183 158 186 0.86

6 10 0.018 7.1 6.8 0.1 21 51 188 218 184 221 0.85

7 10 0.13 52 4.1 0.1 23 44 224 245 216 249 0.85

8 10 0.22 86 3.4 0.3 21 45 250 274 246 281 0.83

9 10 0.31 1.2e+02 2.9 0.0 21 46 278 303 272 306 0.89

10 10 3.8e-05 0.015 15.4 0.2 21 43 306 328 303 333 0.93

#	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	0.098	39	4.5	0.0	21	44	14	37	3	45	0.84
2	10	0.53	2.1e+02	2.2	0.1	22	45	77	100	67	107	0.83
3	10	0.28	1.1e+02	3.1	0.4	20	44	103	127	96	131	0.77
4	10	0.038	15	5.8	0.0	10	50	120	161	116	164	0.79
5	10	0.57	2.2e+02	2.0	0.0	21	44	160	183	158	186	0.86
6	10	0.018	7.1	6.8	0.1	21	51	188	218	184	221	0.85
7	10	0.13	52	4.1	0.1	23	44	224	245	216	249	0.85
8	10	0.22	86	3.4	0.3	21	45	250	274	246	281	0.83
9	10	0.31	1.2e+02	2.9	0.0	21	46	278	303	272	306	0.89
10	10	3.8e-05	0.015	15.4	0.2	21	43	306	328	303	333	0.93

Coding Sequence: ATGGCAAGCACTTTGAAAAGACATCAGAGGATCCACACTGGAGAGAAGCCATATAAATGTGAGATATGTGATGCCACATTCTCCAGGGCAGGATATTTGAAATCACACATTATGGCCCACACAGGAGAGAACCCATATAAATGTGAAATCTGGGACGCACCATTCTCCAGGAAAGAACATTTGAAAGAACACACTAGGATCCACACAGGAGAGAAGCCAAATAAAGGCCATCTGCCAAATAAATGTGACATCTGCAATACCACATTCTCCTCATTGAGCCATTTGAAGAGACATAGTAGGATCCACACTGGAGAGAGGCCATACAAATGTGAAATCTGCGATGCCACGTTCACCATGCCTGGCCATTTGAAATCACATATCAGGACCCATACTGGAGAGAAGCCATATAAATGTGAAATCTGTGATGGAACGTTCACCACTTCGGGCAGTTTGAATTCACACATTAGGATCCACACAGGAGAGAAACCATATAAATGTGAGGTATGTGATGCCACATTCTCCAGGGCAGGATATTTGAAATCACACATTATGGCCCACACAGGAGAGAAGCCATATAAATGTGATATCTGCGACGCACCATTCTCCAGGAAACAAAATTTGAATGAACACACTAGGATCCACACAGGAGAGAAGCCAAATAAAGGCCATCTGCCAAATAAATGTGATATCTGCAATGCTGCATTCTCCTCATTGAGCCATCTGAAGAGACATAATAGGATCCACACTGGAGAGAGGCCATACAAATGTGAAATCTGCGATGCCACGTTCACCAGGCCTGCCCATTTGCAATCACATATCAGGACCCATACTGGAGAGAAGCCATATAAATGTGACAACTGCAGTGCCATGTTTGCCGATCCCAGCGGTTTGAGAACACACGTTAAGATCCACACTGGGGAGCAGCCATATAAATGTGATATTTGCAATGCCACGTTTAGCCAGTTAAGACATTTGAAGAGACACAGTATTAACCACACTAAAGATATGCCATGA
Protein Sequence: MASTLKRHQRIHTGEKPYKCEICDATFSRAGYLKSHIMAHTGENPYKCEIWDAPFSRKEHLKEHTRIHTGEKPNKGHLPNKCDICNTTFSSLSHLKRHSRIHTGERPYKCEICDATFTMPGHLKSHIRTHTGEKPYKCEICDGTFTTSGSLNSHIRIHTGEKPYKCEVCDATFSRAGYLKSHIMAHTGEKPYKCDICDAPFSRKQNLNEHTRIHTGEKPNKGHLPNKCDICNAAFSSLSHLKRHNRIHTGERPYKCEICDATFTRPAHLQSHIRTHTGEKPYKCDNCSAMFADPSGLRTHVKIHTGEQPYKCDICNATFSQLRHLKRHSINHTKDMP

Sequence clustering based on sequence similarity using MMseqs2