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 9 3.2 5.9e+02 0.4 0.5 14 44 20 50 7 54 0.69

2 9 0.28 51 3.8 0.1 21 43 55 77 51 82 0.72

3 9 0.0015 0.28 11.0 0.0 21 46 83 108 78 114 0.86

4 9 0.0026 0.47 10.3 0.2 21 50 111 140 107 142 0.86

5 9 0.17 31 4.5 0.0 21 45 139 163 137 166 0.91

6 9 0.0037 0.68 9.8 0.0 21 51 167 197 163 198 0.87

7 9 0.00014 0.026 14.3 0.3 22 47 196 221 191 227 0.86

8 9 4.2 7.7e+02 -0.0 0.0 21 41 223 243 219 255 0.73

9 9 0.055 10 6.0 0.0 23 44 253 274 249 279 0.89

#	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	9	3.2	5.9e+02	0.4	0.5	14	44	20	50	7	54	0.69
2	9	0.28	51	3.8	0.1	21	43	55	77	51	82	0.72
3	9	0.0015	0.28	11.0	0.0	21	46	83	108	78	114	0.86
4	9	0.0026	0.47	10.3	0.2	21	50	111	140	107	142	0.86
5	9	0.17	31	4.5	0.0	21	45	139	163	137	166	0.91
6	9	0.0037	0.68	9.8	0.0	21	51	167	197	163	198	0.87
7	9	0.00014	0.026	14.3	0.3	22	47	196	221	191	227	0.86
8	9	4.2	7.7e+02	-0.0	0.0	21	41	223	243	219	255	0.73
9	9	0.055	10	6.0	0.0	23	44	253	274	249	279	0.89

Coding Sequence: ATGTCCCGCGAGCGTGAGCCCCGTCACCGCACGGCTGGATCGTCGGCGTCCGTGCGTGCTCCACGCGGTGTCTGCAATGGAAAGAAGCGTCTGGAGTGTCCAGTGTGCGAGAAGCAGTTTGCCTTTGGATGTCAACTAGAAACGCACCTTCGGAttcacaccggggagaagcctttcgagtgcccAGTTTGCAGGAAGAAGTTCAATCGAAATGGACATCTTGAAGGACACCTTCGTACCCACACCggagagaagcctttcgagtgcacagtttgcaagaaGAAGTTCACACAAAGTTCTTATCTGAGAAAGCAccttcgcacccacaccggggaAAAGCCAtttgagtgcacagtttgcaggCAGAGATTCACTCAAAGTGGAAGTCTCAGAACGCATCTTcggatccacaccggggagaagcctttcgagtgctcGGTTTGCAAAATGAAGTTCACTGTAAGTGGAAGTCTCAGAACGCAccttcgcacccacaccggggagaagcctttcgagtgcacagtttgcaagaaGAAGTTCAATGAAAGTGGAGATCTTAGAAAGCACCTTCGCATCCACACccgggagaagcctttcgagtgcacagtttgcaagaaGAAGTTCACACAAAGTTGTAATCTGAGAAAGCAccttcgcacccacaccggggagaagcctttcgagtgcacagtttgcaataAGAAGTTCGCTCGAAGTGAACACCTTAGCGAAAACGTCCACATTCACACTGGgaagaagcctttcgagtgcaccgTTTGCAAAAAGAAGTTTGTCCAAAGTGGACAGCTTCGAACGCACCTTCTGACGCACACCAAGGATACGCATCGTGAGTGA
Protein Sequence: MSREREPRHRTAGSSASVRAPRGVCNGKKRLECPVCEKQFAFGCQLETHLRIHTGEKPFECPVCRKKFNRNGHLEGHLRTHTGEKPFECTVCKKKFTQSSYLRKHLRTHTGEKPFECTVCRQRFTQSGSLRTHLRIHTGEKPFECSVCKMKFTVSGSLRTHLRTHTGEKPFECTVCKKKFNESGDLRKHLRIHTREKPFECTVCKKKFTQSCNLRKHLRTHTGEKPFECTVCNKKFARSEHLSENVHIHTGKKPFECTVCKKKFVQSGQLRTHLLTHTKDTHRE

Sequence clustering based on sequence similarity using MMseqs2