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 0.0026 1.4e+02 3.8 2.0 11 16 13 18 11 20 0.83

2 4 0.096 5e+03 -1.2 2.1 12 15 33 36 32 37 0.93

3 4 3.5e-10 1.8e-05 25.8 3.3 6 22 55 71 51 71 0.87

4 4 0.65 3.4e+04 -3.9 6.9 10 15 83 88 82 89 0.83

#	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	0.0026	1.4e+02	3.8	2.0	11	16	13	18	11	20	0.83
2	4	0.096	5e+03	-1.2	2.1	12	15	33	36	32	37	0.93
3	4	3.5e-10	1.8e-05	25.8	3.3	6	22	55	71	51	71	0.87
4	4	0.65	3.4e+04	-3.9	6.9	10	15	83	88	82	89	0.83

Coding Sequence: ATGTCTGATGACGGATCTACGACGGTGGAGAAGAAAGGACGCGGTAGGCCAAAATCCAACGGAACACAATCAGAGGCCAAAGGTGATACGAAGAAAAGGGGTAGACCACCAGCAGCTGCCAAGACTAAAGAATCGGCAAAGTCTTCTGACGATGAACAGGCTCCGATAGCTAAAAGAGGCAGAGGCAGACCTAAAGGCTCTAAGAAAAAGTCAGCTGCTAAAGGAAAGAGTGCACCAGTCGAAGGGCGGGGACGTGGCCGGCCGCGCAAAGACACTGCACCACCCAAAAAAGATGCTGCTTCTACTGAAGAGGAACAGGATGAAGATGACGAGGACGAGGGCTCTGAAGAGCAGTAA
Protein Sequence: MSDDGSTTVEKKGRGRPKSNGTQSEAKGDTKKRGRPPAAAKTKESAKSSDDEQAPIAKRGRGRPKGSKKKSAAKGKSAPVEGRGRGRPRKDTAPPKKDAASTEEEQDEDDEDEGSEEQ*

Sequence clustering based on sequence similarity using MMseqs2