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 11 0.00022 0.3 12.7 0.1 22 45 7 30 4 38 0.86

2 11 1.8 2.5e+03 0.2 0.1 22 47 35 60 30 65 0.76

3 11 4.1e-05 0.056 15.1 0.1 17 44 58 85 45 93 0.80

4 11 0.027 37 6.0 0.0 21 43 90 112 87 122 0.87

5 11 1.1 1.5e+03 0.9 0.2 21 43 118 140 112 145 0.82

6 11 0.019 26 6.5 0.2 20 45 145 170 139 177 0.82

7 11 0.76 1.1e+03 1.4 0.0 21 43 174 196 171 202 0.82

8 11 0.55 7.6e+02 1.8 0.2 21 43 202 224 196 233 0.72

9 11 0.19 2.7e+02 3.3 0.1 21 42 230 251 226 258 0.73

10 11 0.039 54 5.5 0.5 21 44 258 281 252 286 0.86

11 11 0.0056 7.8 8.2 0.1 21 43 286 308 283 317 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	11	0.00022	0.3	12.7	0.1	22	45	7	30	4	38	0.86
2	11	1.8	2.5e+03	0.2	0.1	22	47	35	60	30	65	0.76
3	11	4.1e-05	0.056	15.1	0.1	17	44	58	85	45	93	0.80
4	11	0.027	37	6.0	0.0	21	43	90	112	87	122	0.87
5	11	1.1	1.5e+03	0.9	0.2	21	43	118	140	112	145	0.82
6	11	0.019	26	6.5	0.2	20	45	145	170	139	177	0.82
7	11	0.76	1.1e+03	1.4	0.0	21	43	174	196	171	202	0.82
8	11	0.55	7.6e+02	1.8	0.2	21	43	202	224	196	233	0.72
9	11	0.19	2.7e+02	3.3	0.1	21	42	230	251	226	258	0.73
10	11	0.039	54	5.5	0.5	21	44	258	281	252	286	0.86
11	11	0.0056	7.8	8.2	0.1	21	43	286	308	283	317	0.90

Coding Sequence: ATGTTAGTACACACCGATGAAAAGCCTTTTCGTTGCGCCACCTGCGATCGCAAATTTCGACAATCGAAAGATTTAAAGAGGCACATGCTAACGCACACccgcgagaaaccgttcagttgcgacCTCTGCGAGTACAAGTGCGGACGGGCCCACCATCTGGAACAACACATGTCAATACACAGCGAAGATAAGCCCTTTCGTTGCGTCATCTGCGATTTCAAATTTCGGCAATCCAAGGATTTAAAAAggcacatgttaacgcacaccggcgagaaacccttcggttgtgacctttgcgactACAAGGGCAGACAGTCCCATCATTTGAAGCAGCATAGGCTAACGCACTCCGGCGAGAAGCCTTACTCCTGCGACCTTTGCAAATATAAATGTCGATACGTCGGAAACTTGATAGATCACAAGTCAACGCACAGCGGCGAGAAGCAGTTTCAATGTGGAATTTGCGATTTTAAGTGCCGGCTTAAGAGACGCCTGAAACGACATATGTACACgcacacggacgagaagccgcttagttgcgatctttgcgactaCAAATGTTGGGAAAGTAGGCGTTTGGATCTGCAtcagttaaaacacaccggtgAGAGACCGTTTGGTTGTGAGATTTGCGGTTACAAATGCGCACGTGCGTCAAGTTTGAAGCAACATGGATTGCTgcataccggcgagaaacctCTCGCTTGTGATatctgcgattacaaatgtcgagaGAGAAGATCTTGGAACCTGCATAAGTTGAAGCATACCGGCGAACGGCCGTCTTGTTGCGGGATTTGCAATTACAAATGCGTAGACGAGAAAACCTTGCAACGGCACATGTTGACGCACCCCGGCGAACAACCGTTcgcttgtgatctttgcgattacaagtgccgacATGCCGGAAACTTGAAGAAACACAAATTGACACATCAGCGAGAAGCTGCGGTTACAAATGCCCAAATATTTGAAAATGCATAG
Protein Sequence: MLVHTDEKPFRCATCDRKFRQSKDLKRHMLTHTREKPFSCDLCEYKCGRAHHLEQHMSIHSEDKPFRCVICDFKFRQSKDLKRHMLTHTGEKPFGCDLCDYKGRQSHHLKQHRLTHSGEKPYSCDLCKYKCRYVGNLIDHKSTHSGEKQFQCGICDFKCRLKRRLKRHMYTHTDEKPLSCDLCDYKCWESRRLDLHQLKHTGERPFGCEICGYKCARASSLKQHGLLHTGEKPLACDICDYKCRERRSWNLHKLKHTGERPSCCGICNYKCVDEKTLQRHMLTHPGEQPFACDLCDYKCRHAGNLKKHKLTHQREAAVTNAQIFENA

Sequence clustering based on sequence similarity using MMseqs2