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 0.13 5.1e+02 2.0 0.0 21 47 90 116 77 123 0.82

2 8 0.025 99 4.3 0.0 26 52 124 150 116 152 0.85

3 8 0.57 2.3e+03 -0.1 0.1 22 46 148 172 144 180 0.82

4 8 0.034 1.4e+02 3.8 0.6 21 44 175 198 168 202 0.80

5 8 0.0081 32 5.8 0.0 21 48 203 230 198 235 0.81

6 8 0.036 1.4e+02 3.8 0.0 21 47 231 257 228 262 0.82

7 8 0.00089 3.5 8.9 0.1 21 45 259 283 254 292 0.83

8 8 0.0039 16 6.8 0.1 22 48 316 342 312 344 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	8	0.13	5.1e+02	2.0	0.0	21	47	90	116	77	123	0.82
2	8	0.025	99	4.3	0.0	26	52	124	150	116	152	0.85
3	8	0.57	2.3e+03	-0.1	0.1	22	46	148	172	144	180	0.82
4	8	0.034	1.4e+02	3.8	0.6	21	44	175	198	168	202	0.80
5	8	0.0081	32	5.8	0.0	21	48	203	230	198	235	0.81
6	8	0.036	1.4e+02	3.8	0.0	21	47	231	257	228	262	0.82
7	8	0.00089	3.5	8.9	0.1	21	45	259	283	254	292	0.83
8	8	0.0039	16	6.8	0.1	22	48	316	342	312	344	0.89

Coding Sequence: ATGTccgaaaaaaatgaaatgaatttgAATGTTAACAATGAACTGAATGCTGCTATTAAGGAAGAACCAGTGGAGACTTGCAGTGATGAAAATATCGAACATGTGCATGATACGTTGGAAGCTATAAAACAGAACACAATCTACATATGCAATATCAAACAAGAAACTACCGACTACAGATCTGAAAACTCCGACAATAACGACGAAGAAACAGAAGTCTTAGAATTTCCTTCCgacgaaattaaaatatctgAAAGTGACACACACAACGATAAAAGATTTACATGTTCGATGTGTAACAtgaaatttaaatggaaaaataatttgatgAGTCACATGAAAGTTCACAATTCTAACAAAAGGGACTTTGTTTGCACCATGTGTAATGCAAGTTTCAGGTGGAAGAATAATTTGGTAAGTCATGTAAAAATTCATACAGACAAAAAGCCGTATGCTTGCGAAGTGTGCGACAGTAAGTTCACAACTCAACGATATCTACACAGTCACAAACAAATCCACGCCTCGAAGAAACGACACATATGTCCGATCTGCAACGCTCAATACGCCTGGAAAGTGAGCTTGGACAGGCACATAAGATCtcacaccggcgaaaaaccattttcctGCAAAATTTGCCATATCAAATTTGCAGGTAGAAGCAATCTACACACCCATATGACGGTTCATTCCGACGAAAAACCGTTTGCATGCAAAATTTGTGACTTTAAATTTTCGCGAAAGTACAACTTAAACAGTCACATGAAGACGCACAATAAAGAAAAACCCTATTCGTGTGAAATTTGTCAAGCCAAGTTTGCGGGAAAAAGCAGTTTAAGGAGGCACGAACAATCCCATTCTGGTGAAAAACCCTACGTATGTGATCAGTGCGACTCGAAATTTACGCGAAAGTACATTTTAGATAGTCACATGCTGACTCACACGCACGACAAACCTTTTGGTTGCGAGAAGTGTAATGCTAGATTTGTGTGGAAGAGAAGTTTAAGGAGGCACATTCAAACTGCCCACGAAGAGAATAACTAG
Protein Sequence: MSEKNEMNLNVNNELNAAIKEEPVETCSDENIEHVHDTLEAIKQNTIYICNIKQETTDYRSENSDNNDEETEVLEFPSDEIKISESDTHNDKRFTCSMCNMKFKWKNNLMSHMKVHNSNKRDFVCTMCNASFRWKNNLVSHVKIHTDKKPYACEVCDSKFTTQRYLHSHKQIHASKKRHICPICNAQYAWKVSLDRHIRSHTGEKPFSCKICHIKFAGRSNLHTHMTVHSDEKPFACKICDFKFSRKYNLNSHMKTHNKEKPYSCEICQAKFAGKSSLRRHEQSHSGEKPYVCDQCDSKFTRKYILDSHMLTHTHDKPFGCEKCNARFVWKRSLRRHIQTAHEENN

Sequence clustering based on sequence similarity using MMseqs2