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 6 0.00015 3.2 9.2 0.3 21 52 10 41 5 43 0.91

2 6 0.091 2e+03 0.2 0.1 21 45 45 69 40 73 0.75

3 6 0.0017 37 5.8 0.2 18 43 70 95 67 100 0.77

4 6 0.017 3.7e+02 2.6 0.1 21 43 101 123 95 128 0.83

5 6 5.4e-07 0.012 17.0 0.1 19 54 127 162 120 162 0.86

6 6 1.8e-05 0.39 12.1 0.2 20 53 156 189 155 190 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	6	0.00015	3.2	9.2	0.3	21	52	10	41	5	43	0.91
2	6	0.091	2e+03	0.2	0.1	21	45	45	69	40	73	0.75
3	6	0.0017	37	5.8	0.2	18	43	70	95	67	100	0.77
4	6	0.017	3.7e+02	2.6	0.1	21	43	101	123	95	128	0.83
5	6	5.4e-07	0.012	17.0	0.1	19	54	127	162	120	162	0.86
6	6	1.8e-05	0.39	12.1	0.2	20	53	156	189	155	190	0.89

Coding Sequence: ATGACCATTCATATGAGAAAGCATACAGGAGAAAAACCTCATCATTGTACACACTGTGGGTCAAGCTTTAGCCAATCAGGGACATTAAAACTTCATATTAAGAGAAGACATTCCACGGAACCTCGTCATTTAAGGGAGAGACCGTTTTCATGTGAAACTTGCGGACAGCGCTTCTTCACCAAAAGAGATCTCATGGTGCACTTACGCAGGCATACAGGGGAGCAACCGTTTGAGTGTCAATTTTGCAAGAAAACTTTTATCCAACAAAGTGCCTTAATTAGACATACTAGAACTCATACAGGGGAGCGCCCGTATAAGTGTACGATATGTTCCAAATCTTTTGCCGATAGCAGTTTACTAAATAAACATCATTCCGTTCACACAGATGAAAGATTATTCTCCTGCCCAATATGTGCTAAACCAATTAAAGCTCAGTATACCCTCAAAAAGCATTTGGAACTTCATCAAGAACAGAAACCCGCTGTGTGCGATGTTTGCGGAATAGTTTGTACTAACTACAACAATCTCAAAGCGCACACCAAGAGACATCATTCGGAAAAGTCAGGCCATtgtcaaatttgcaacaaaaacTGCTCGGATCTAATTGCTCATATGAGAAAACATACGGGTGAAAAAGCATTTAGCTGCACTATATGTGGAAAAGGTTTTCCTTTGAAAATCAGCCTAGCAGTACATATGCATAAACATAATAGAGATTCTAAAAAGTTTCCTTGTGAAGTGACAGATTGTACACAAAAATTTGCCAAAAAGGATCAATTAGATGCCCATGTTAAAAAATCACATGCTGACAATAATACTCACCCCAgttaa
Protein Sequence: MTIHMRKHTGEKPHHCTHCGSSFSQSGTLKLHIKRRHSTEPRHLRERPFSCETCGQRFFTKRDLMVHLRRHTGEQPFECQFCKKTFIQQSALIRHTRTHTGERPYKCTICSKSFADSSLLNKHHSVHTDERLFSCPICAKPIKAQYTLKKHLELHQEQKPAVCDVCGIVCTNYNNLKAHTKRHHSEKSGHCQICNKNCSDLIAHMRKHTGEKAFSCTICGKGFPLKISLAVHMHKHNRDSKKFPCEVTDCTQKFAKKDQLDAHVKKSHADNNTHPS

Sequence clustering based on sequence similarity using MMseqs2