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 6 0.0025 70 3.8 2.0 11 16 13 18 11 20 0.83

2 6 0.029 8e+02 0.4 0.5 12 15 32 35 31 36 0.92

3 6 0.32 9e+03 -2.9 0.2 13 17 39 43 39 46 0.72

4 6 4e-10 1.1e-05 25.6 2.2 4 21 52 69 50 70 0.87

5 6 0.63 1.8e+04 -3.8 6.9 10 15 81 86 80 87 0.83

6 6 1 2.8e+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	6	0.0025	70	3.8	2.0	11	16	13	18	11	20	0.83
2	6	0.029	8e+02	0.4	0.5	12	15	32	35	31	36	0.92
3	6	0.32	9e+03	-2.9	0.2	13	17	39	43	39	46	0.72
4	6	4e-10	1.1e-05	25.6	2.2	4	21	52	69	50	70	0.87
5	6	0.63	1.8e+04	-3.8	6.9	10	15	81	86	80	87	0.83
6	6	1	2.8e+04	-5.3	1.3	6	9	91	94	90	94	0.72

Coding Sequence: ATGTCTGATGACGGATCTACGACAGTGGAGAAGAAAGGACGCGGTAGGCCAAAGTCAAATGGAACCCAATCGGATGCAAAAGAAGTCAAGAAAAGAGGGAGACCAACAGCAGCCGGTAAGCCCAAAGAATCTGCAAAATCATCAGATGATGAACAGGCGCCGGTAGCTAAAAGAGGCAGAGGAAGGCCTAAAGGATCGAAAAAAAAGGCTATTGGCAAGGGAAAGGGTGGATCAGAAGGAAGGGGACGTGGCCGACCACGCAAGGATGCTCCGCCACCCAAAAAAGATGCTGCCTCCACTGAAGAAGAACAAGATGACTATGAGGAGGATGAAGGCTCTGAAGACCAATAA
Protein Sequence: MSDDGSTTVEKKGRGRPKSNGTQSDAKEVKKRGRPTAAGKPKESAKSSDDEQAPVAKRGRGRPKGSKKKAIGKGKGGSEGRGRGRPRKDAPPPKKDAASTEEEQDDYEEDEGSEDQ

Sequence clustering based on sequence similarity using MMseqs2