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 7 0.0025 60 3.8 2.0 11 16 13 18 11 20 0.83

2 7 0.094 2.2e+03 -1.2 2.1 12 15 32 35 31 36 0.93

3 7 0.32 7.6e+03 -2.9 0.2 13 17 39 43 39 46 0.72

4 7 2.7e-09 6.5e-05 22.9 2.2 4 20 52 68 50 70 0.86

5 7 0.44 1.1e+04 -3.4 0.3 13 16 72 75 72 78 0.69

6 7 0.12 2.9e+03 -1.6 4.6 10 15 81 86 80 87 0.84

7 7 1 2.4e+04 -5.3 1.3 6 9 91 94 90 94 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	7	0.0025	60	3.8	2.0	11	16	13	18	11	20	0.83
2	7	0.094	2.2e+03	-1.2	2.1	12	15	32	35	31	36	0.93
3	7	0.32	7.6e+03	-2.9	0.2	13	17	39	43	39	46	0.72
4	7	2.7e-09	6.5e-05	22.9	2.2	4	20	52	68	50	70	0.86
5	7	0.44	1.1e+04	-3.4	0.3	13	16	72	75	72	78	0.69
6	7	0.12	2.9e+03	-1.6	4.6	10	15	81	86	80	87	0.84
7	7	1	2.4e+04	-5.3	1.3	6	9	91	94	90	94	0.72

Coding Sequence: ATGTCTGATGACGGATCTACGACAGTGGAGAAGAAAGGGCGCGGGAGGCCAAAGTCAAACGGCACACAATCTGAGGCCAAAGATGTCAAGAAAAGAGGAAGACCACCGGCGGCTGGCAAACCTAAGGAATCTGCTAAATCATCCGATGACGAACAAGCGCCGGTAGCAAAAAGAGGCAGGGGCAGGCCTAAAGGATCTAAGAAAAGGGTTATTGGCAAGCCAAAGGATGGCTCTGAAGGTAGGGCTCGTGGCAGGCCACGCAAAGATGCTCCCCCACCCAAGAAAGATGCTGCCTCCTCTGAAGAAGAACAAGATGACTATGAGGAGGATGAGGGCTCTGAAGACCAATAG
Protein Sequence: MSDDGSTTVEKKGRGRPKSNGTQSEAKDVKKRGRPPAAGKPKESAKSSDDEQAPVAKRGRGRPKGSKKRVIGKPKDGSEGRARGRPRKDAPPPKKDAASSEEEQDDYEEDEGSEDQ

Sequence clustering based on sequence similarity using MMseqs2