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 0.014 96 5.1 0.0 16 52 8 45 5 46 0.85

2 11 0.0099 67 5.6 0.1 23 48 44 69 41 72 0.86

3 11 0.001 6.8 8.7 0.3 18 48 68 98 66 103 0.87

4 11 0.038 2.6e+02 3.7 0.0 17 48 96 127 95 129 0.85

5 11 0.00025 1.7 10.7 0.2 21 48 129 156 124 162 0.80

6 11 0.057 3.9e+02 3.1 0.1 19 47 155 183 153 188 0.72

7 11 0.12 8e+02 2.1 0.1 20 48 185 213 181 215 0.81

8 11 0.00024 1.6 10.8 0.1 17 48 211 242 210 247 0.88

9 11 0.014 91 5.1 0.1 17 48 240 271 239 273 0.87

10 11 8.5e-05 0.57 12.2 0.2 18 48 270 300 268 303 0.85

11 11 0.00065 4.4 9.4 0.1 18 50 299 331 297 333 0.82

#	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	0.014	96	5.1	0.0	16	52	8	45	5	46	0.85
2	11	0.0099	67	5.6	0.1	23	48	44	69	41	72	0.86
3	11	0.001	6.8	8.7	0.3	18	48	68	98	66	103	0.87
4	11	0.038	2.6e+02	3.7	0.0	17	48	96	127	95	129	0.85
5	11	0.00025	1.7	10.7	0.2	21	48	129	156	124	162	0.80
6	11	0.057	3.9e+02	3.1	0.1	19	47	155	183	153	188	0.72
7	11	0.12	8e+02	2.1	0.1	20	48	185	213	181	215	0.81
8	11	0.00024	1.6	10.8	0.1	17	48	211	242	210	247	0.88
9	11	0.014	91	5.1	0.1	17	48	240	271	239	273	0.87
10	11	8.5e-05	0.57	12.2	0.2	18	48	270	300	268	303	0.85
11	11	0.00065	4.4	9.4	0.1	18	50	299	331	297	333	0.82

Coding Sequence: ATGTTAACCTTACCTACTGAACGTACCAAAAATAATGGGGAAAAGCTTCACTCCTGCCCTAATTGTGACTATAGTACAAGTTATTCTGATAAATTGAAGAAACACATCATCTATAAACATAATTATGTAAAACCTTTGCCCTGCCCTCATTGTGACTATTCAACAGTTTATTCACAAAACTTGAAGAAACACATAATCTCCAAACATAATGATGACAAACCTTACTCTTGCCCTCATTGTGACTATGCAACACGTCATTCTcaagttttaaaaatacatatcaGCTCAAAACATAATGGTGACAAACCTCACTCCTGTCCTGATTGTGACTATAGTACTGGTTATTCTCAAGCCCTAAAGAACCATATTATCTCGAAACATAGTAATTACAAACCTCACTCCTGCCCGCATTGTGACTATTCAACTGttcaatttaaaaacttaaagAGACATATCTCAAAACATAGTAATGACAAACCTCACTCTTGCCCTTTTTGTGACTTTGCTTCAGTTCATTCTGATTACATAAAGAACCACATCATCTCGAAACATAGTAATGAAAAACATCTGTCCTGCTCTCATTGTGACTATTCTACAGGTATTTCACAAAACTTTAGGAAACACATGATCTCTAAACATAGTAATGAAAAACCTCACTCTTGCCCTCTTTGCGACTATGTAACATTTTATTCTCaagttttaaaattacataTCAGCTCTAAACATAAAGGTGACAAACCTCACTCCTGCCCTCATTGTGACTTTAGTTCTGGTTATTCTCAAAGCTTAAAGAAACACATAATCTCAAAACATAGTAATGACAGACCTCATTCCTGCCCTTACTGTGACTATTCAACTGTTGAATCTAGAAACTTAAAGAATCATATCATCTCAAAACATACTAATGACAAACCTCACTCTTGCCCACACTGTGATTATGCTACAGTTATATCTTACGATTTAAAAAAGCACATCAGCTTTAAGCATAAAGCTAGTTCATAA
Protein Sequence: MLTLPTERTKNNGEKLHSCPNCDYSTSYSDKLKKHIIYKHNYVKPLPCPHCDYSTVYSQNLKKHIISKHNDDKPYSCPHCDYATRHSQVLKIHISSKHNGDKPHSCPDCDYSTGYSQALKNHIISKHSNYKPHSCPHCDYSTVQFKNLKRHISKHSNDKPHSCPFCDFASVHSDYIKNHIISKHSNEKHLSCSHCDYSTGISQNFRKHMISKHSNEKPHSCPLCDYVTFYSQVLKLHISSKHKGDKPHSCPHCDFSSGYSQSLKKHIISKHSNDRPHSCPYCDYSTVESRNLKNHIISKHTNDKPHSCPHCDYATVISYDLKKHISFKHKASS

Sequence clustering based on sequence similarity using MMseqs2