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 0.017 1.2e+02 4.0 0.6 4 15 76 87 73 88 0.79

2 3 5.3 3.5e+04 -3.9 1.3 6 8 100 102 99 104 0.52

3 3 1.1e-08 7.5e-05 23.8 5.3 10 21 117 128 112 129 0.88

#	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	0.017	1.2e+02	4.0	0.6	4	15	76	87	73	88	0.79
2	3	5.3	3.5e+04	-3.9	1.3	6	8	100	102	99	104	0.52
3	3	1.1e-08	7.5e-05	23.8	5.3	10	21	117	128	112	129	0.88

Coding Sequence: TATAAGCTAATGGATCAGGAAGGAGATATAGAAGACCTGGTTCATGCAGAACATTTAAAGCCATTTTATGACGAGGTAGAGCCAGGGGAGAGCGATGATGGACAGGAaatcgaagaagaagacgacgccCGACCGCCGGGGGATTCTAGCGAAACGGTGAAGCGCGACCCACCGCATGCGAGAACTCAGTTGCCAGCGGGCACTGGGAAAAACCAGGACAGTGTTGGTGCACCTACGCAAATTCGAGGAAGAGGTAGGCCTAGGAAGACGGCGTTGGTGACTCAAAGAATTGCCGATCCTACGCCCACGCCTGCCAACACTGTACCTGTTGCGAGCGAGCCCTCTGCGAGACCGCGCGGCAGACCTAAAGGGTCAAAGAATCGCGTACTAACCAGCGATAACGTTTCCGTTAGTCCCCGGAGAACACGCGCAAATCCGAACCTGGGTTTCCAAGGATAA
Protein Sequence: YKLMDQEGDIEDLVHAEHLKPFYDEVEPGESDDGQEIEEEDDARPPGDSSETVKRDPPHARTQLPAGTGKNQDSVGAPTQIRGRGRPRKTALVTQRIADPTPTPANTVPVASEPSARPRGRPKGSKNRVLTSDNVSVSPRRTRANPNLGFQG

Sequence clustering based on sequence similarity using MMseqs2