Basic Information

Transcription Factor Domain

TF Family: HMGA
Domain: HMGA domain
PFAM: AnimalTFDB
TF Group: Unclassified Structure
Description: This entry represents the HMGA family, whose members contain DNA-binding domains, also known as AT hooks due to their ability to interact with the narrow minor groove of AT-rich DNA sequences. They play an important role in chromatin organisation [1]. The high mobility group (HMG) proteins are the most abundant and ubiquitous nonhistone chromosomal proteins. They bind to DNA and to nucleosomes and are involved in the regulation of DNA-dependent processes such as transcription, replication, recombination, and DNA repair. They can be grouped into three families: HMGB (HMG 1/2), HMGN (HMG 14/17) and HMGA (HMG I/Y). The characteristic domains are: AT-hook for the HMGA family, the HMG Box for the HMGB family, and the nucleosome-binding domain (NBD) for the members of the HMGN family [2].
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 4 0.014 4e+02 1.4 4.3 11 16 13 18 11 20 0.84

2 4 1.2e-09 3.5e-05 24.0 3.7 4 21 52 70 49 71 0.82

3 4 0.62 1.8e+04 -3.8 6.9 10 15 82 87 81 88 0.83

4 4 1 2.8e+04 -5.3 1.3 6 9 92 95 91 95 0.72

#	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	4	0.014	4e+02	1.4	4.3	11	16	13	18	11	20	0.84
2	4	1.2e-09	3.5e-05	24.0	3.7	4	21	52	70	49	71	0.82
3	4	0.62	1.8e+04	-3.8	6.9	10	15	82	87	81	88	0.83
4	4	1	2.8e+04	-5.3	1.3	6	9	92	95	91	95	0.72

Coding Sequence: atgtctGATGATGGTGGAGCAGTAGTAGAGAAGAAGGGGCGAGGACGTCCTAAACCTAACGGAACACCAGTCAAGGAAGTAAAAGGAGAAGTGAAGAAGCGCGGACGGCAGCCGTCAGCCACACCCAAGAAGGAGTCGGCCAAATCATCGGACGACGAGCCCTCCGCCGCCAAGCGAGGACGCGGCCGGCCCAAGGGCTCCAAGAAGAAGGCCAGCAAGCCCAAGAAGGCGAGCGTAGAGGGCCGAGGCCGCGGCAGGCCGAGGAAGGACGCTCCCCCCCCCAAGCAGACGCCCGCTTCCACGGAGGAGGAAGCGGAAGATGACGACGATGATGCCTCGGACCAGTAG
Protein Sequence: MSDDGGAVVEKKGRGRPKPNGTPVKEVKGEVKKRGRQPSATPKKESAKSSDDEPSAAKRGRGRPKGSKKKASKPKKASVEGRGRGRPRKDAPPPKQTPASTEEEAEDDDDDASDQ

Sequence clustering based on sequence similarity using MMseqs2