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 0.16 3.9e+03 -2.0 2.1 12 15 37 40 36 41 0.93

2 3 2.6e-09 6.2e-05 23.0 3.7 4 21 55 73 52 74 0.82

3 3 1 2.4e+04 -4.6 6.9 10 15 85 90 84 91 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	3	0.16	3.9e+03	-2.0	2.1	12	15	37	40	36	41	0.93
2	3	2.6e-09	6.2e-05	23.0	3.7	4	21	55	73	52	74	0.82
3	3	1	2.4e+04	-4.6	6.9	10	15	85	90	84	91	0.83

Coding Sequence: ATGTCTGATGATGGTGGTGCGGTAGTCGAGAAGAAGGGCCGAGGGAGGGTGGCCAAATCAAACGGGACCAAGGATGAAGCTAAGGATAGTAAAGTAGATGCAAAAAAGCGAGGGAGACCGCCATCAGCCGCCCCAAAAAAAGATTCTGCCAAGTCATCAGATGACGAGCCCTCTGCGGCAAAGAGAGGCCGTGGCCGTCCCAAGGGATCAAAGAAAAAGGCTAGCAAGGCAAAGAAGCCAAGTGTGGAAGGTAGAGGGCGTGGTAGGCCGAGGAAAGATGCGCCACCTCCCAAACAGAATGCTTCCACAGAGGACGagcatgatgatgatgatgaagatgaaggATCTGATCACCAGACTAGGAATTTAAGGTTTAAAGTAACCCAAGCCTTGATGCCAAGATGCCGTTTCTGCGGCGAGAGTGATGAGTCAATGGAGCACCTTCTATGTGACTGCAACGCTCTGGCAAGGAAGAGACTAACGATGCTGGGCAATGGATATCCAAGACCAGAAGAAGTGGTCTCGTTCACACAGGGTTGCACAGTGGGCTACCTAAGGTCCATCTTTGGATAA
Protein Sequence: MSDDGGAVVEKKGRGRVAKSNGTKDEAKDSKVDAKKRGRPPSAAPKKDSAKSSDDEPSAAKRGRGRPKGSKKKASKAKKPSVEGRGRGRPRKDAPPPKQNASTEDEHDDDDEDEGSDHQTRNLRFKVTQALMPRCRFCGESDESMEHLLCDCNALARKRLTMLGNGYPRPEEVVSFTQGCTVGYLRSIFG

Sequence clustering based on sequence similarity using MMseqs2