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 4 0.01 40 4.5 0.2 22 48 183 209 173 213 0.86

2 4 4.1e-05 0.16 12.2 0.0 21 52 210 241 207 242 0.89

3 4 0.01 40 4.6 0.1 21 51 238 268 236 269 0.87

4 4 0.00021 0.83 9.9 0.1 21 47 266 292 262 299 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	4	0.01	40	4.5	0.2	22	48	183	209	173	213	0.86
2	4	4.1e-05	0.16	12.2	0.0	21	52	210	241	207	242	0.89
3	4	0.01	40	4.6	0.1	21	51	238	268	236	269	0.87
4	4	0.00021	0.83	9.9	0.1	21	47	266	292	262	299	0.88

Coding Sequence: ATGCATATAAAAACACTGCAACATGCTCATgctgctgcagcagcggcagcagccatgccaaattgtgaaattgtaatagtatcatcttcacctaatcataataataacaataataataatagtgaaagtacaaatggaggatcaagtaatggcagtggaggcagcggtggtagtagcaacaatggtcatcaacagcagcaTGGGTCTTCAGCACCGCCACCAACTGAGATACCAATACCATTTATGCATTTGGCTGGAGTAACTGCCGAGGCTCATGCTGCAGCGCAAGCGGCAGCTATGGCTGCTGCCCAAGCCGCAGCGGCTCAAGCTGCTGCTGCCGAGCAAGGCAGTACACATGTGCCACCACCAGGCAGTGCATTGGCTCATCATCATGCCATACTGCAGCAACATCCACTGGCCCATCTTGTGGCGACTGCTGCCCATAGTCCTGCATTATCCGAACAACATTTTATAGCCCGCGATGCTACAGTCTTGACTAATGGTCATAATGGTAACTCTTCCTCGGCATCAGGCGGacctacccccgaaaagccatttcagtgtaatgtatgcgaaagacgtttccgccaattgagtactcttacgaaccatgtgaaaattcatactggagaaaaaccgtacaaatgtaatgtttgtgataaaaccttccgtcaatcgtccactttaactaaccacttgaaaatacataccggtgagaagccatttaactgtacctattgtccaaaacattttcgtcaattgagtacattaacaaatcatttaaaaattcatacagGTGAGAAGCCGTTTGAATGTGCCGTTTGCAAAAAACAATTCCGTCAGTCTAGTACATTAAATAATCACATAAAAATTCACGTAATGGACAAGGTCTACGTACCCGTGAAGATTAAAACTGAGGAGGAAGAAGGATGA
Protein Sequence: MHIKTLQHAHAAAAAAAAMPNCEIVIVSSSPNHNNNNNNNSESTNGGSSNGSGGSGGSSNNGHQQQHGSSAPPPTEIPIPFMHLAGVTAEAHAAAQAAAMAAAQAAAAQAAAAEQGSTHVPPPGSALAHHHAILQQHPLAHLVATAAHSPALSEQHFIARDATVLTNGHNGNSSSASGGPTPEKPFQCNVCERRFRQLSTLTNHVKIHTGEKPYKCNVCDKTFRQSSTLTNHLKIHTGEKPFNCTYCPKHFRQLSTLTNHLKIHTGEKPFECAVCKKQFRQSSTLNNHIKIHVMDKVYVPVKIKTEEEEG

Sequence clustering based on sequence similarity using MMseqs2

100% Identity: iTF_00655560; iTF_01374402; iTF_00742434; iTF_01374629; iTF_00742235; iTF_01231875; iTF_00816871; iTF_00817075; iTF_00817883; iTF_01232093; iTF_01375203; iTF_01375393; iTF_00747879; iTF_00747719; iTF_00748648; iTF_00750118; iTF_00748491; iTF_00750892; iTF_00749357; iTF_00750735; iTF_00749212; iTF_00749952; iTF_00976103; iTF_01174533; iTF_00975918; iTF_01174737; iTF_01236322; iTF_01237317; iTF_01238221; iTF_01237103; iTF_01236088; iTF_01238012; iTF_01162599; iTF_00900203; iTF_00900011; iTF_00717102; iTF_01175667; iTF_01175879; iTF_01202135; iTF_01201932; iTF_01259743; iTF_01259503; iTF_01138375; iTF_01138628; iTF_00679882; iTF_01074828; iTF_01398897; iTF_01397874; iTF_01399128; iTF_01075038; iTF_01399806; iTF_01019693; iTF_01019882; iTF_01315150; iTF_00998211; iTF_00998023; iTF_01313416; iTF_01315820; iTF_01314960; iTF_01313241; iTF_01315993; iTF_01314330; iTF_01314143; iTF_01166032; iTF_01376913; iTF_01377127; iTF_01261554; iTF_01194928; iTF_01194685; iTF_01261341; iTF_00760436; iTF_00901140; iTF_00900945; iTF_01109588; iTF_01109777; iTF_00921624; iTF_00045794; iTF_00922373; iTF_00045610; iTF_00259437; iTF_00922574; iTF_00260336; iTF_00260090; iTF_00259232; iTF_00921760; iTF_01177272; iTF_00893210; iTF_00331995; iTF_00331801; iTF_01427741; iTF_01427950; iTF_00200414; iTF_00200194; iTF_00435934; iTF_00436141; iTF_00371583; iTF_00350464;
90% Identity: iTF_00200414;
80% Identity: iTF_00655560;