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 5 0.00016 1.5 10.0 0.1 16 50 40 74 31 78 0.85

2 5 0.00022 2.1 9.6 0.2 23 46 75 98 71 104 0.88

3 5 0.0029 27 6.0 0.3 20 44 100 124 96 132 0.85

4 5 0.03 2.8e+02 2.7 0.1 21 44 129 152 126 160 0.86

5 5 0.00089 8.3 7.6 0.0 23 45 159 181 153 187 0.91

#	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	5	0.00016	1.5	10.0	0.1	16	50	40	74	31	78	0.85
2	5	0.00022	2.1	9.6	0.2	23	46	75	98	71	104	0.88
3	5	0.0029	27	6.0	0.3	20	44	100	124	96	132	0.85
4	5	0.03	2.8e+02	2.7	0.1	21	44	129	152	126	160	0.86
5	5	0.00089	8.3	7.6	0.0	23	45	159	181	153	187	0.91

Coding Sequence: ATGGCCTCCAGAGAATTTGATGAAATGCCTATTAATAATGTGGCGATGGCCATGTACACTTGCAAAAGATGTAATAAGATATTCCCCTGTAAACGTGACCAACTGCTGCACAAAAAAGAAGTGCATTCCCAAACAAAATCGTCTTATGAGTGtaaaatatgtaccaaatacttttGCAATAGTGGTAATTTGGAACGGCATATGAAAGTACACAATGATGTACGGCCTTTTGTTTGTCGCATCTGTGGCAAAGCCTTCGCCCAATCTGTGAATTTAAATCGGCACTATTCCGTACACAATGGTGAACGTCCATATCCCTGTACATTTTGTAGTAAAACATTCACCCAACAATCGAACATGCAACGCCATCAGCTAACACACACCGGAGAGAAACCCTTTCGTTGTAAACGCTGTGGTCGGTATTTCTCGCAACGTGTTAACCTTAAAAAGCATATTATGGGCCACTTGAATACGAAACCATACACATGCAAAATATGTCAGAAGTCGTTTATACAATTGGGCAATTTCAAAAAACATCTGCAGTCCCATCTTAAGGATGGCATAGAAATCGATATGAAGGCTGTGGTGGCCGAGGCTCAGGCAATGGCAAAACAAAGTTTGGAAATGGCTGATGATCAACCAGTTGGCTTCGAGTGTGCTGTCTGTCGCTCGATTTTCAATAACTTCACCGACTTTGAAATGCACGAAAATGAGTGCAACGACAACGCCCAGGCTGCCATGGAACAAAAATATAATCCCGACCAACAGCTTCACGAAGTTGTTGTCGAAGAGGTCGATGATCATGTCGAGGAGCACATCATACCACATGAAGGTGGTAGCAGTACTGGCCACTTCGGTAGTTATGCACCATTAAAGTTTAGTGTCTCACAATTAGATACACATGAAATAATTATTGAAACCAGCcgataa
Protein Sequence: MASREFDEMPINNVAMAMYTCKRCNKIFPCKRDQLLHKKEVHSQTKSSYECKICTKYFCNSGNLERHMKVHNDVRPFVCRICGKAFAQSVNLNRHYSVHNGERPYPCTFCSKTFTQQSNMQRHQLTHTGEKPFRCKRCGRYFSQRVNLKKHIMGHLNTKPYTCKICQKSFIQLGNFKKHLQSHLKDGIEIDMKAVVAEAQAMAKQSLEMADDQPVGFECAVCRSIFNNFTDFEMHENECNDNAQAAMEQKYNPDQQLHEVVVEEVDDHVEEHIIPHEGGSSTGHFGSYAPLKFSVSQLDTHEIIIETSR

Sequence clustering based on sequence similarity using MMseqs2