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 0.00037 21 6.5 0.2 4 15 5 16 3 17 0.83

2 3 9.9e-11 5.7e-06 27.5 5.3 3 20 53 70 51 72 0.83

3 3 0.41 2.4e+04 -3.3 3.2 9 16 81 88 77 90 0.71

#	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	0.00037	21	6.5	0.2	4	15	5	16	3	17	0.83
2	3	9.9e-11	5.7e-06	27.5	5.3	3	20	53	70	51	72	0.83
3	3	0.41	2.4e+04	-3.3	3.2	9	16	81	88	77	90	0.71

Coding Sequence: ATGTCGGACACAGAGGTTGTTGAACCGAAAAAGGGTCGAGGCCGCCCTGCCAACCCCGAAAAGAATAGCGTCGCCCCGAAGAAGCGAGCCCGCGCCGCATCACCAAAAGACAAAGTCGAggagaaggaaaaggaaaaggataaGGCGCTCGCTTCGGACGAGGAACCCTCGCCAAAGCGCGGCCGAGGCAGGCCCAAGGGAACCTCGAAAAAGGCCGCGAAAGCAAAGAAACCGGAGGCCAAAAAGGGACGCGGAAGAGGCAAAAAGAAACCCGCCAAGGACGAATCCAGTGAGGAGGAAGATGaggaggacgaggacgaggaggAGAACGACAGCGAAGACAACGAGGAGAATGATGAATCCGACTAA
Protein Sequence: MSDTEVVEPKKGRGRPANPEKNSVAPKKRARAASPKDKVEEKEKEKDKALASDEEPSPKRGRGRPKGTSKKAAKAKKPEAKKGRGRGKKKPAKDESSEEEDEEDEDEEENDSEDNEENDESD

Sequence clustering based on sequence similarity using MMseqs2