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 0.0017 25 4.3 1.7 7 15 6 14 2 15 0.83

2 3 9.6e-10 1.4e-05 24.3 5.6 4 21 55 72 53 73 0.88

3 3 0.7 1e+04 -4.0 4.9 12 18 87 93 86 96 0.58

#	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	0.0017	25	4.3	1.7	7	15	6	14	2	15	0.83
2	3	9.6e-10	1.4e-05	24.3	5.6	4	21	55	72	53	73	0.88
3	3	0.7	1e+04	-4.0	4.9	12	18	87	93	86	96	0.58

Coding Sequence: ATGTCGGAGGTCGTTGAACCTAAGAAGGGTCGCGGACGTCCACCCAACGTTGAAAGGAGCAGCGTGGCCCCGAAAAAGCGTGCCCGAGCCCTCTCCCCGAAGGACACTAAAGGTGAAGAGAAGGAGCGCGAGAAGGAGAAGGCTGTCGTTTcggatggcgatgatgaaccGTCACCGAAGCGTGGCCGCGGACGGCCAAAAGGCACTACAAAGAAGGCAACTAAGGCCACCAAAAAGGCACCGGTTGCTCCggtcggccgtggccgtggtcggggaaagaaaaaggcggCCAAAGCGGCCGAATCGTCggacgaggatgatgatgacgatcacGAGGACGAAGACCCGGAAGACAGCGATGAAAACGAGGAAAACTACGAAAACGATGACTCTGATTAA
Protein Sequence: MSEVVEPKKGRGRPPNVERSSVAPKKRARALSPKDTKGEEKEREKEKAVVSDGDDEPSPKRGRGRPKGTTKKATKATKKAPVAPVGRGRGRGKKKAAKAAESSDEDDDDDHEDEDPEDSDENEENYENDDSD

Sequence clustering based on sequence similarity using MMseqs2