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 10 0.2 1.2e+02 3.9 0.2 24 46 12 34 6 40 0.83

2 10 1 5.9e+02 1.6 0.0 26 44 42 60 36 64 0.85

3 10 0.037 22 6.2 0.1 21 44 65 88 61 92 0.90

4 10 0.033 19 6.4 0.1 21 43 93 115 90 121 0.88

5 10 0.13 79 4.4 0.3 23 44 123 144 119 152 0.84

6 10 0.45 2.6e+02 2.8 0.0 21 43 149 171 146 177 0.88

7 10 0.015 8.8 7.5 0.1 22 44 178 200 174 205 0.90

8 10 0.021 13 7.0 0.1 21 50 205 233 201 236 0.83

9 10 0.32 1.9e+02 3.2 0.0 21 44 233 256 230 260 0.89

10 10 0.0062 3.7 8.7 0.2 21 44 261 284 258 290 0.90

#	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	10	0.2	1.2e+02	3.9	0.2	24	46	12	34	6	40	0.83
2	10	1	5.9e+02	1.6	0.0	26	44	42	60	36	64	0.85
3	10	0.037	22	6.2	0.1	21	44	65	88	61	92	0.90
4	10	0.033	19	6.4	0.1	21	43	93	115	90	121	0.88
5	10	0.13	79	4.4	0.3	23	44	123	144	119	152	0.84
6	10	0.45	2.6e+02	2.8	0.0	21	43	149	171	146	177	0.88
7	10	0.015	8.8	7.5	0.1	22	44	178	200	174	205	0.90
8	10	0.021	13	7.0	0.1	21	50	205	233	201	236	0.83
9	10	0.32	1.9e+02	3.2	0.0	21	44	233	256	230	260	0.89
10	10	0.0062	3.7	8.7	0.2	21	44	261	284	258	290	0.90

Coding Sequence: ATGTCTAATGTATTTCACTCTATAAACAAAAGAGCAACCGAATGCCCCGTGTGCGGTCGCAAACTCAAATCCCATCGAAGTATAAGCAAGCACATTCTGctgcacaccgacgagaagctcCTCAGGTGTGCCGTGTGCGACTACAGGTTCAAGGACACCGGAAAACTGCGGCGGCACATGATgtcgcacaccgacgagaagccgttcggctgCGCCCACTGCGACTACAGGTGCCGGGACTCCACGAAACTGAAACGGCACATGCTAACGCACAGCGACGAGAAGCCGTACTTCTGCGGCCTCTGCGACTACAAATGCCGCACCGCCAGGAACTTGAAGCTGCACGAGTTCGTCCACACCGGCGACATGCCGTTCAGCTGCGAGCTCTGCGAGTACAAATGCCGGGATTCCACGAGGTTGAGGCAGCACACGCTggtgcacaccggcgagaagccgttcagctgcgacctttgcgattacaaatgccgaggGCCCAGGGATCTGAAGCTGCACAAgctgatacacaccggcgaaaTGCCGTTCAGCTGCgagctttgcgattacaagtgccgcgAGTCTACTAAGTTGAAGCGGCACATGCTGACGCACACCGGggagaaaccgttcagctgcGATTATTGTGATTATAAGTGCTTAACGTCCGCGAACTTGAAGCGGCATATGCTGACGCACACCGCTGAAAAACCGTACGGCTGCGAGCTCTGCGGCTGTAAATTCCGACAGCTGCCGCATTTGAAGGGGCACATGTTGACGCACACCGGTGAAAAACCATTCAGctgcgacctttgcgattataagtgccggcAGTCCGCTCACTTGAAGCAGCACATGTTGACACACCAAAGACGAGAAGCCCTTCAGCTttaa
Protein Sequence: MSNVFHSINKRATECPVCGRKLKSHRSISKHILLHTDEKLLRCAVCDYRFKDTGKLRRHMMSHTDEKPFGCAHCDYRCRDSTKLKRHMLTHSDEKPYFCGLCDYKCRTARNLKLHEFVHTGDMPFSCELCEYKCRDSTRLRQHTLVHTGEKPFSCDLCDYKCRGPRDLKLHKLIHTGEMPFSCELCDYKCRESTKLKRHMLTHTGEKPFSCDYCDYKCLTSANLKRHMLTHTAEKPYGCELCGCKFRQLPHLKGHMLTHTGEKPFSCDLCDYKCRQSAHLKQHMLTHQRREALQL

Sequence clustering based on sequence similarity using MMseqs2