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 4 0.0064 3.2e+02 2.5 3.2 11 16 13 18 11 19 0.82

2 4 0.035 1.8e+03 0.2 0.9 12 15 33 36 30 37 0.91

3 4 5.1e-10 2.5e-05 25.2 3.7 6 22 55 71 51 71 0.87

4 4 0.63 3.2e+04 -3.9 6.9 10 15 82 87 81 88 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	4	0.0064	3.2e+02	2.5	3.2	11	16	13	18	11	19	0.82
2	4	0.035	1.8e+03	0.2	0.9	12	15	33	36	30	37	0.91
3	4	5.1e-10	2.5e-05	25.2	3.7	6	22	55	71	51	71	0.87
4	4	0.63	3.2e+04	-3.9	6.9	10	15	82	87	81	88	0.83

Coding Sequence: ATGTCAGACGATGGTTCAACTGTTGTAGAGAAGAAAGGACGCGGCAGACCTAAAGCTAATGGAACACAAGCGGAGGCCAAAGGTGATAGCAAGAAAAGAGGAAGACCACCAGCACCAGCCAGGACTAAAGAATCAGCAAAATCGTCAGATGATGAGCAAGCGCCCATAGCAAAAAGAGGACGAGGACGGCCTAAGGGTTCCAAGAAAAAGGGATCGAGAGGAAAGAGTGCACCAGTTGAAGGACGGGGACGTGGACGACCACGTAAGGACCCAGCGCCACCTAAAAAAGATGCTGCCTCAACTGAAGAGGAACAGGACGAAGATGATGAAGATGAGGGTTCTGAAGAACAGTAA
Protein Sequence: MSDDGSTVVEKKGRGRPKANGTQAEAKGDSKKRGRPPAPARTKESAKSSDDEQAPIAKRGRGRPKGSKKKGSRGKSAPVEGRGRGRPRKDPAPPKKDAASTEEEQDEDDEDEGSEEQ

Sequence clustering based on sequence similarity using MMseqs2

100% Identity: iTF_00111682;
90% Identity: iTF_00908865; iTF_00931426; iTF_00931425; iTF_00932570; iTF_00637670; iTF_00889233; iTF_00720309; iTF_01360635; iTF_00706977; iTF_00794626; iTF_00157221; iTF_00636421; iTF_00823914; iTF_00404941; iTF_01197743; iTF_00823058; iTF_01166713; iTF_01502107;
80% Identity: -