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 0.14 1.1e+02 4.8 0.2 24 52 72 100 66 101 0.82

2 10 0.38 2.9e+02 3.5 0.4 22 44 98 120 95 128 0.83

3 10 0.0056 4.2 9.3 0.2 22 50 126 154 122 157 0.84

4 10 0.031 23 7.0 0.1 22 50 154 182 150 185 0.84

5 10 0.021 16 7.5 0.1 22 52 182 212 179 214 0.85

6 10 0.054 41 6.2 0.0 22 48 210 236 206 240 0.84

7 10 0.27 2.1e+02 3.9 0.0 22 43 238 259 235 267 0.86

8 10 0.22 1.7e+02 4.3 0.0 22 44 266 288 262 296 0.85

9 10 0.014 11 8.1 0.5 22 51 294 323 289 325 0.85

10 10 0.11 87 5.2 0.3 23 44 323 344 319 351 0.86

#	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	0.14	1.1e+02	4.8	0.2	24	52	72	100	66	101	0.82
2	10	0.38	2.9e+02	3.5	0.4	22	44	98	120	95	128	0.83
3	10	0.0056	4.2	9.3	0.2	22	50	126	154	122	157	0.84
4	10	0.031	23	7.0	0.1	22	50	154	182	150	185	0.84
5	10	0.021	16	7.5	0.1	22	52	182	212	179	214	0.85
6	10	0.054	41	6.2	0.0	22	48	210	236	206	240	0.84
7	10	0.27	2.1e+02	3.9	0.0	22	43	238	259	235	267	0.86
8	10	0.22	1.7e+02	4.3	0.0	22	44	266	288	262	296	0.85
9	10	0.014	11	8.1	0.5	22	51	294	323	289	325	0.85
10	10	0.11	87	5.2	0.3	23	44	323	344	319	351	0.86

Coding Sequence: ATGAAGTCTGAAGGCGCTAAATCGGAACTGTATGGTGGATGTGGTAAGACAGTCCAGCCAAATTTTGCAATGTGTAGCGTGGTTGCAAAACTAGTGTGGGGCCTTGTATTATCATGTTGCAGGATCAAGAAGTTACCTAAGTACGAAgcttgtgggaagagctttatcaaTTCAGAtgatttaaggaaacatcttGTGCATGAAAGCAAGAAGCtccataaatgtgaagtttgtagcAAGAGCTTTAACCAGGCATCTTATTTGAGGCAACATCTTCTGATTCACAAGGGCAAGAAGCCCCATAAATGTGGAGTTTGTGGACATTGCTTTATCAAGGCAGCTTACTTGCGGCGACATATTTTAagtcatgagggcaagaaaccccATAAGTGTAAGGTTTGTGAcaagagctttacccaggcaCGAACTttaaggcaacacattttaattcatgagggcaagaagcctcATAATTGTGAAATTTGTGGATTAACTTTTAcctatatctttaatttaagaagacatattttgattcatgatggcaagaagccacataaatgtgaaatttgtgggaagagctttactcagtcATCTTGTTGGAGGAAACATCTTCttattcatgagggcaagaagccccataaatgtgaattttgtggtaAAAGTTTTACGCAGACATCTAATTTGAAacaacatcttttaattcatgagggcaagaagccacataaatgtgaagtttgtgggctGAGCTTTACACAAACATCTACTATGAGGAGACATTCTTTgactcatgagggtaagaagccacataagtgtgaagtttgtggcttGAGCTTTACTCAGACATCTACTTTGAAGAGACATGTACTGTCTCATGAgggaaagaagccacataagtgtaaCATTTGTGAAAGAAGCTTTACACAGGCAGCAACTTTGAGgcaacatcttttaattcatgagggcagAAAGccacacaaatgtgaagtttgtagtTTGAGCTTTACACAGATATCTACTTTGAGGAGACATGTTTTGACTCATGCAGACAAGAAGCTCCATAACTGA
Protein Sequence: MKSEGAKSELYGGCGKTVQPNFAMCSVVAKLVWGLVLSCCRIKKLPKYEACGKSFINSDDLRKHLVHESKKLHKCEVCSKSFNQASYLRQHLLIHKGKKPHKCGVCGHCFIKAAYLRRHILSHEGKKPHKCKVCDKSFTQARTLRQHILIHEGKKPHNCEICGLTFTYIFNLRRHILIHDGKKPHKCEICGKSFTQSSCWRKHLLIHEGKKPHKCEFCGKSFTQTSNLKQHLLIHEGKKPHKCEVCGLSFTQTSTMRRHSLTHEGKKPHKCEVCGLSFTQTSTLKRHVLSHEGKKPHKCNICERSFTQAATLRQHLLIHEGRKPHKCEVCSLSFTQISTLRRHVLTHADKKLHN

Sequence clustering based on sequence similarity using MMseqs2