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 8 0.35 8.9e+02 2.0 0.0 21 44 37 60 32 68 0.84

2 8 0.27 6.9e+02 2.4 0.0 21 43 65 87 57 92 0.81

3 8 0.01 26 6.9 0.0 21 43 93 115 84 120 0.87

4 8 0.0019 4.7 9.3 0.1 21 46 121 146 116 154 0.85

5 8 0.056 1.4e+02 4.6 0.0 21 45 177 201 169 210 0.84

6 8 0.075 1.9e+02 4.2 0.0 21 46 233 258 221 266 0.84

7 8 0.15 3.8e+02 3.2 0.0 21 44 261 284 256 292 0.84

8 8 0.3 7.7e+02 2.2 0.1 21 43 289 311 282 317 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	8	0.35	8.9e+02	2.0	0.0	21	44	37	60	32	68	0.84
2	8	0.27	6.9e+02	2.4	0.0	21	43	65	87	57	92	0.81
3	8	0.01	26	6.9	0.0	21	43	93	115	84	120	0.87
4	8	0.0019	4.7	9.3	0.1	21	46	121	146	116	154	0.85
5	8	0.056	1.4e+02	4.6	0.0	21	45	177	201	169	210	0.84
6	8	0.075	1.9e+02	4.2	0.0	21	46	233	258	221	266	0.84
7	8	0.15	3.8e+02	3.2	0.0	21	44	261	284	256	292	0.84
8	8	0.3	7.7e+02	2.2	0.1	21	43	289	311	282	317	0.85

Coding Sequence: ATGAATTCGGACGAGACATCTAACTGTCTAAGGGAAAATCCATTGACTGATTTCTGTGATAAAATGTCTAACACATTAAATTTACCTGTGCATATAAGGACACATAACGGGGAAAAACCGCATAACTGTAATCTCTGTGATAAAAGCTTTTCTACATCATCAGATTTAACAAAACATACAAGGACACATACCGGAGAAAAACCTTACAAGTGTGATATCTGTGATCTATCTTTTTCTctgaaaacaaatttgaaaaatcataaaaggacacacactggtgaaaaaccgtatgAATGTGATGTTTGTGATCAAGCTTTTTCTCAAgcacataatttaaaaacccaTAAAAGGACCCATACCGGTGAAATTCCGTATAAATGTGATATATGTGGTCGTGCCTTTTCTCAAGCATATAATTTAACAAGGCATATAAGGACACACACCGGTGAAAAACCTTATAAATGTGATACCTGTGGGAAGGGATTTTCTACATCATCAGATTTAACAATGCATACAAGGACACACACCGGCGAAAAACCGTATAAGTGTGATATATGTGAAAAGGGGTTTTCTACATCATTCGATTTAACAAGACATACAAGGACACATACCGGTATAAAGCCGTATAAATGTGACTTATGTGAGCAATCTTTTTCTCTAGCACATCATTTAACAGGGCATATAAGGACACACACCGGTGAAAAACCGTTTAAATGCGGTTTCTGTGGTCAATCGTTTTCTCAGAAAACAAACTTAACAAAACATACAAGGACACACACCGGCGAAAAGCCTCACATATGTCTAATCTGTGATAAGGGGTATTCTACATCATTAGATTTAACAAGGCATACAAGAACACATACGGGAGAAAAACCATATAAATGTGATGTGTGTGATCACGCTTTTTCTCAGGCACATAGCTTAAACTCCCATAAAAGAACACATATCAGTATTGAGCCGTATAAATATGTTATCTGTGATTTagcatcaaattaa
Protein Sequence: MNSDETSNCLRENPLTDFCDKMSNTLNLPVHIRTHNGEKPHNCNLCDKSFSTSSDLTKHTRTHTGEKPYKCDICDLSFSLKTNLKNHKRTHTGEKPYECDVCDQAFSQAHNLKTHKRTHTGEIPYKCDICGRAFSQAYNLTRHIRTHTGEKPYKCDTCGKGFSTSSDLTMHTRTHTGEKPYKCDICEKGFSTSFDLTRHTRTHTGIKPYKCDLCEQSFSLAHHLTGHIRTHTGEKPFKCGFCGQSFSQKTNLTKHTRTHTGEKPHICLICDKGYSTSLDLTRHTRTHTGEKPYKCDVCDHAFSQAHSLNSHKRTHISIEPYKYVICDLASN

Sequence clustering based on sequence similarity using MMseqs2