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 2.6 1.2e+05 -3.2 0.1 38 46 57 65 52 70 0.71

2 10 0.068 3e+03 1.9 0.2 21 44 102 125 96 129 0.80

3 10 0.0008 36 8.1 0.0 21 44 130 153 127 158 0.91

4 10 0.00055 25 8.6 0.1 21 45 158 182 155 185 0.87

5 10 6.1e-05 2.7 11.7 0.2 21 44 186 209 182 213 0.91

6 10 0.002 91 6.8 0.4 21 47 214 240 210 245 0.85

7 10 0.00011 5 10.8 0.2 21 49 242 270 238 273 0.86

8 10 0.0055 2.5e+02 5.4 0.1 21 47 270 296 265 303 0.81

9 10 0.26 1.1e+04 0.1 0.0 21 46 298 323 291 330 0.84

10 10 0.19 8.7e+03 0.5 0.1 20 45 325 350 318 353 0.83

#	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	2.6	1.2e+05	-3.2	0.1	38	46	57	65	52	70	0.71
2	10	0.068	3e+03	1.9	0.2	21	44	102	125	96	129	0.80
3	10	0.0008	36	8.1	0.0	21	44	130	153	127	158	0.91
4	10	0.00055	25	8.6	0.1	21	45	158	182	155	185	0.87
5	10	6.1e-05	2.7	11.7	0.2	21	44	186	209	182	213	0.91
6	10	0.002	91	6.8	0.4	21	47	214	240	210	245	0.85
7	10	0.00011	5	10.8	0.2	21	49	242	270	238	273	0.86
8	10	0.0055	2.5e+02	5.4	0.1	21	47	270	296	265	303	0.81
9	10	0.26	1.1e+04	0.1	0.0	21	46	298	323	291	330	0.84
10	10	0.19	8.7e+03	0.5	0.1	20	45	325	350	318	353	0.83

Coding Sequence: ATGTGCATAGATGGACTGTACCCCTGCAGCGGCTGTGATATTGTCTTCACGAATGCTGCCTACATGGAGAAGCATCTCTGCAGAGGACAAAAGACTGTAGATGGCGGTGAGGAAGGTGGTGGGAAGATTGTGGACCGTATGAAGAGGTTTGTGTGCCAGGTTTGTGACAAGAAGTTTCGCCGTCATTACCACCTCACTGTGCATCAGAAGAATCACTCTGGCATCAAGCAGTTTGGCTGCATGCACTGCGGGAACAGGTTCTTTCGGAAAACAGATTTGACTGTTCACATGCGCATACACAGTGGCGAGAAGCCTTTCCAATGCACAATATGTGGAGTACGGTTCAACCAGAGGTCTATACTCACAACGCACATTCGCATACACACCGGCGAGAAACCTTTCGGCTGTACCATGTGTTCGGAGAAGTTTCGCAAGAGTTCGTATCTTAAAAGGCACATTCTAAGTCACACTGGTGAGAAACCTCACGAGTGCCCTGTTTGCGGTGCCAGGTTTCGGCTTAGCAATGTGTTCAAGGCGCATTTCCGTATTCACACCGGTGAAAAGCCGTACGCGTGTGACATTTGCAACAACCGCTTCAAGCAGAGTGCTGATCTGCGtgcacacatacgcacacacacggGTGAGAAGCCTTACTGCTGCACGATGTGTCCTGCCAAGTTCAGCCAAAATTCAGCCCTCAGGTCACATACACGCATCCACACGGGAGAGAAGCCTTACCAATGTCCCACGTGTGACATGAACTTTCGTCAGCGTTCGGACTTGAACCGCCACTCATCCATCCACATGACTGAGAAACCGTTCACATGCAGCTACTGTGATGCTAAGTTCAGCCAGCGGGTTCATCTGCTGAACCACATCCGCACTCACACAGGCGAGAAACCATTTGTGTGTAAACAGTGCGGAAAGGATTTTGGTCGCAGTTCAGCCCTCAGCAGGCATAAAAAAATGCATGACAGTGAGAATCCGTACAACTGTATAGAGTGCCCAATGAGATTCAAACTGTCCACTGATCTGGTGAAGCACGTGCGAAGTGCACACAAGTAA
Protein Sequence: MCIDGLYPCSGCDIVFTNAAYMEKHLCRGQKTVDGGEEGGGKIVDRMKRFVCQVCDKKFRRHYHLTVHQKNHSGIKQFGCMHCGNRFFRKTDLTVHMRIHSGEKPFQCTICGVRFNQRSILTTHIRIHTGEKPFGCTMCSEKFRKSSYLKRHILSHTGEKPHECPVCGARFRLSNVFKAHFRIHTGEKPYACDICNNRFKQSADLRAHIRTHTGEKPYCCTMCPAKFSQNSALRSHTRIHTGEKPYQCPTCDMNFRQRSDLNRHSSIHMTEKPFTCSYCDAKFSQRVHLLNHIRTHTGEKPFVCKQCGKDFGRSSALSRHKKMHDSENPYNCIECPMRFKLSTDLVKHVRSAHK

Sequence clustering based on sequence similarity using MMseqs2