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 0.0056 3.8 9.0 0.1 20 51 34 65 21 67 0.82

2 10 0.79 5.4e+02 2.1 0.0 21 48 63 90 60 94 0.85

3 10 0.26 1.8e+02 3.6 0.0 21 45 91 115 82 118 0.90

4 10 0.065 44 5.6 0.2 22 46 120 144 117 150 0.88

5 10 0.39 2.7e+02 3.1 0.0 21 47 175 201 167 208 0.86

6 10 0.068 46 5.5 0.0 21 52 203 234 199 235 0.87

7 10 0.36 2.4e+02 3.2 0.0 22 48 232 258 229 262 0.84

8 10 0.076 51 5.4 0.0 21 46 259 284 255 290 0.88

9 10 5.4 3.7e+03 -0.6 0.0 22 46 288 312 285 319 0.83

10 10 0.85 5.8e+02 2.0 0.1 21 45 315 339 309 342 0.88

#	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	0.0056	3.8	9.0	0.1	20	51	34	65	21	67	0.82
2	10	0.79	5.4e+02	2.1	0.0	21	48	63	90	60	94	0.85
3	10	0.26	1.8e+02	3.6	0.0	21	45	91	115	82	118	0.90
4	10	0.065	44	5.6	0.2	22	46	120	144	117	150	0.88
5	10	0.39	2.7e+02	3.1	0.0	21	47	175	201	167	208	0.86
6	10	0.068	46	5.5	0.0	21	52	203	234	199	235	0.87
7	10	0.36	2.4e+02	3.2	0.0	22	48	232	258	229	262	0.84
8	10	0.076	51	5.4	0.0	21	46	259	284	255	290	0.88
9	10	5.4	3.7e+03	-0.6	0.0	22	46	288	312	285	319	0.83
10	10	0.85	5.8e+02	2.0	0.1	21	45	315	339	309	342	0.88

Coding Sequence: aTGTTTGCTTCAGACTCTACCgaaaccacatttaaaaggtataaatgtaataaaacattcacaGAAGCAACTCGACCAGAAAAGCACGCGAGGATTCGTacgggtgaaaagccatttaagtgCGTCGAGTGTGATAAGACGTTTAAACAATCCAGTGAACTAACAAGGCACATcaggattcatactggtgagaagccatttAAGTGCGTCGAGTGTTTCAAATCGTTTACAGATTCCAGCCGTTTAAAAgtgcacatgaggattcacacaggaGAAAAGCCGTACAAGTGCGTTGAGTGTGATAAGACATTCATACAATCCATTGATCTAACGAGACATATCATGATTCATACGGGTGAAATGCCATTTAAGTGTCTACAGTGTGATAAGGCATTTAGACGATCCAACGATCTGACAAGACATATCAGAATTCATACGTGTGAGAAGCGCTTTAAGTGTGCTGAGTGTGATAAGGCGTTTATAAAGCCAAATGACCTAACAAAGCATATCAGGATTCATACAGGCGAGAAGCCATTTAAGTGTGTCgagtgtttcaaattatttacagattctAGTAGTTTAAAAGTACATATGAGGTATCATACAGGAgaaaagccatttaagtgtggcgagtgtgataaaacatttatacaatCCATTGACCTGACGAGACATATCAGGATTCATACACGTGAAAAGCCCTTTAAGTGCGTCGAGTGTGATAAggcatttataaaatcaaatgacCTAACaagacacatgaggattcatacagggGAAAAGCCGTTTAAgtgtgtcgagtgtgataagGCATTTATAAAGTCAAATAATCTAACAAGACATATCAGGGTTCATACAGGAGAAAAGTCATTTAAGTGTGTGGagtgctttaaattatttactgattccAGTAGTTTAAAAgtacacatgaggattcacacaggaGAAAGGCCATTTAAGTGCCTTGAGTGCGATAAAAGATTTATACAATCCGTTGAATTATCGAGGCATATGAGGGTCCACACATGTTAA
Protein Sequence: MFASDSTETTFKRYKCNKTFTEATRPEKHARIRTGEKPFKCVECDKTFKQSSELTRHIRIHTGEKPFKCVECFKSFTDSSRLKVHMRIHTGEKPYKCVECDKTFIQSIDLTRHIMIHTGEMPFKCLQCDKAFRRSNDLTRHIRIHTCEKRFKCAECDKAFIKPNDLTKHIRIHTGEKPFKCVECFKLFTDSSSLKVHMRYHTGEKPFKCGECDKTFIQSIDLTRHIRIHTREKPFKCVECDKAFIKSNDLTRHMRIHTGEKPFKCVECDKAFIKSNNLTRHIRVHTGEKSFKCVECFKLFTDSSSLKVHMRIHTGERPFKCLECDKRFIQSVELSRHMRVHTC

Sequence clustering based on sequence similarity using MMseqs2