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 5 0.0023 58 3.9 1.8 11 16 13 18 11 20 0.83

2 5 1 2.5e+04 -5.1 1.4 12 14 33 35 33 35 0.91

3 5 7.3e-10 1.8e-05 24.7 2.9 4 21 53 70 51 71 0.87

4 5 0.63 1.6e+04 -3.9 6.9 10 15 83 88 82 89 0.83

5 5 1 2.5e+04 -5.3 1.3 6 9 93 96 92 96 0.72

#	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	5	0.0023	58	3.9	1.8	11	16	13	18	11	20	0.83
2	5	1	2.5e+04	-5.1	1.4	12	14	33	35	33	35	0.91
3	5	7.3e-10	1.8e-05	24.7	2.9	4	21	53	70	51	71	0.87
4	5	0.63	1.6e+04	-3.9	6.9	10	15	83	88	82	89	0.83
5	5	1	2.5e+04	-5.3	1.3	6	9	93	96	92	96	0.72

Coding Sequence: ATGTCTGATGACGGATCGACAACTGTTGAGAAGAAAGGTCGTGGCAGGCCTAAAGCTAATGGAACACAGTCGGAGGCCAAAAGTGACACGAAGAAAAGAGGTAGACAGCCAGCACCTACTAAAACAAAAGAATCTACTAAATCTTCTGATGATGAGCAAGCACCGGTAGCAAAGAGAGGGCGAGGTCGGCCCAAAGGTTCCAAAAAAAAGACTGCAACCAAGGCAAAGAGTGCACCTGTTGAAGGAAGAGGTCGTGGTAGGCCACGTAAGGATGCTCCACCACCAAAAAAGGATGCTGCATCGACTGAAGAAGAGCAAGATGAGGATGatgaagaagaaggctctgaccagtaa
Protein Sequence: MSDDGSTTVEKKGRGRPKANGTQSEAKSDTKKRGRQPAPTKTKESTKSSDDEQAPVAKRGRGRPKGSKKKTATKAKSAPVEGRGRGRPRKDAPPPKKDAASTEEEQDEDDEEEGSDQ

Sequence clustering based on sequence similarity using MMseqs2