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 3 0.015 5.2e+02 1.3 3.2 11 16 13 18 11 19 0.82

2 3 4e-10 1.4e-05 25.5 1.9 4 21 54 71 52 72 0.90

3 3 0.5 1.7e+04 -3.5 3.9 12 15 86 89 85 90 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	3	0.015	5.2e+02	1.3	3.2	11	16	13	18	11	19	0.82
2	3	4e-10	1.4e-05	25.5	1.9	4	21	54	71	52	72	0.90
3	3	0.5	1.7e+04	-3.5	3.9	12	15	86	89	85	90	0.86

Coding Sequence: ATGTCTGACGACGGCTCGGCAGTGGTGGAGAAGAAAGGACGTGGCCGACCTAAATCAAATGGTGCTCCAGCGGTGGAGGCTAAGGGTGAAGCTAAGAAGCGTGGGCGGACAGCGGCACCCACGAAGGCGAAGGAATCTACAAAATCGTCCGATGATGAGCAGGCGCCGGCAGCAAAACGAGGTCGCGGCAGACCAAAAGGCTCCAAAAAGAAGGCTGCTCCTAAAGCTAAGAAGGCAGCTTCTGAGGGGAAGGGTCGCGGCCGGCCGCGCAAGGAGGCACCACCGCCCAAGAAGGACGCAGCGTCCACAGAGGAGGAGCAGGACGAGGATGAGGAGGACGAGGGCTCCGACCACGGGCGACCCGCCACGCGAATAAACTATACAAGTACGGTGCGAGGTGCGGGTGCGAGGGAGAACACCGACGAACCGCTGCGGCGGCGACACGCCAAGATCCGCCCCGCGCATTATAACAAAAACGACATGCGCCGCCTCAACAAGAACCCTGGTTATATTTTTTTAAACCAACAAAACATCACTCATACGGATACCGCCTTCGAGCACAGTCTTTCCGAAAGGAGTTTCCGCAGGATCCGCAGGAGCCGCCTGAGCTGTGAGGTGGCGGACCGAACAAAATCGAATAGCCTGGTAACACTGCTACCTCATCCGCAGCCAACTTCAGCGAGCTCCCTCCACGCGATTGGTGGGGAATTGTGA
Protein Sequence: MSDDGSAVVEKKGRGRPKSNGAPAVEAKGEAKKRGRTAAPTKAKESTKSSDDEQAPAAKRGRGRPKGSKKKAAPKAKKAASEGKGRGRPRKEAPPPKKDAASTEEEQDEDEEDEGSDHGRPATRINYTSTVRGAGARENTDEPLRRRHAKIRPAHYNKNDMRRLNKNPGYIFLNQQNITHTDTAFEHSLSERSFRRIRRSRLSCEVADRTKSNSLVTLLPHPQPTSASSLHAIGGEL

Sequence clustering based on sequence similarity using MMseqs2