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 6 5.3e-06 0.057 14.4 0.1 13 44 27 57 24 61 0.88

2 6 6.9e-06 0.074 14.0 0.3 21 45 62 86 58 89 0.92

3 6 0.32 3.4e+03 -0.9 0.0 19 43 106 130 95 134 0.61

4 6 0.00026 2.8 9.0 0.1 21 46 163 188 150 196 0.82

5 6 0.076 8.2e+02 1.1 0.1 21 45 191 215 186 218 0.77

6 6 0.00078 8.4 7.4 0.0 21 43 219 241 214 245 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	6	5.3e-06	0.057	14.4	0.1	13	44	27	57	24	61	0.88
2	6	6.9e-06	0.074	14.0	0.3	21	45	62	86	58	89	0.92
3	6	0.32	3.4e+03	-0.9	0.0	19	43	106	130	95	134	0.61
4	6	0.00026	2.8	9.0	0.1	21	46	163	188	150	196	0.82
5	6	0.076	8.2e+02	1.1	0.1	21	45	191	215	186	218	0.77
6	6	0.00078	8.4	7.4	0.0	21	43	219	241	214	245	0.82

Coding Sequence: ATGTCATTTCCTGACTATGACAAAATATGTCGTACATGTTTAGGAGAAGGAGAGTTACATTCAATGTTTAGTGAAAgAGAACAACCAAAAACACATAATCAAGAGAAACCATTTACTTGTGATATTTGTGgacataaatttagttttaattgtaatttacgAAGACATATGATGACACATACAGGAGAACGCCCACATCGATGTCCAATTTGTAGTAAAGGGTTTCGACTATCAGAACGGTTAcgatcacatttaaaaaaacataatgaacCAGATGATATAAAAGAGAAAGAAAGTAGTAAAAAGAAGATCTCATCAGAAGAAAATCGGAcgcatatatgtaaaatttgtcaaaaaggATATTTGACTAAAAGTGCATTAAGAACCCATGCTTTAATACATGGTGATAAAACATTTCTTTGCAGTGAATGTGGAAAAGGTTTCGTTAGTAAGCCATTACTTCAGTCTCATAGTAAAATTCATACAGGTGAAAAACCATTTGCATGCAAAATATGTACTAAAGTGTTTACACAACGTCATCATTTAACATATCATATGAGAACACATAGTGGAGAAAAACCTTATATGTGTTCAGTGTGTGgaaaaaacttttctttaaattgtaatttaactgTACATATGCGTATGCATTCAGGAGAAACACCTTATACTTGTCCTGTTTGTGGTAAAGGTTTTTATGATTCAAGTAGCATGAAGAAACATAAAAAAGGACATGGAAATATTCCTCTTCAAATAAGAGATTTAGCTGGATAA
Protein Sequence: MSFPDYDKICRTCLGEGELHSMFSEREQPKTHNQEKPFTCDICGHKFSFNCNLRRHMMTHTGERPHRCPICSKGFRLSERLRSHLKKHNEPDDIKEKESSKKKISSEENRTHICKICQKGYLTKSALRTHALIHGDKTFLCSECGKGFVSKPLLQSHSKIHTGEKPFACKICTKVFTQRHHLTYHMRTHSGEKPYMCSVCGKNFSLNCNLTVHMRMHSGETPYTCPVCGKGFYDSSSMKKHKKGHGNIPLQIRDLAG

Sequence clustering based on sequence similarity using MMseqs2