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 0.0024 70 3.9 1.8 11 16 13 18 11 20 0.83

2 6 1 2.9e+04 -7.9 10.0 12 15 33 36 32 50 0.66

3 6 5.1e-10 1.5e-05 25.2 1.9 6 21 56 71 52 72 0.86

4 6 0.68 2e+04 -3.9 0.5 15 17 75 77 75 77 0.81

5 6 0.65 1.9e+04 -3.9 6.9 10 15 85 90 84 91 0.83

6 6 1 2.9e+04 -5.3 1.3 6 9 95 98 94 98 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	0.0024	70	3.9	1.8	11	16	13	18	11	20	0.83
2	6	1	2.9e+04	-7.9	10.0	12	15	33	36	32	50	0.66
3	6	5.1e-10	1.5e-05	25.2	1.9	6	21	56	71	52	72	0.86
4	6	0.68	2e+04	-3.9	0.5	15	17	75	77	75	77	0.81
5	6	0.65	1.9e+04	-3.9	6.9	10	15	85	90	84	91	0.83
6	6	1	2.9e+04	-5.3	1.3	6	9	95	98	94	98	0.72

Coding Sequence: ATGTCTGACGACGGTTCAACGGCAGTTGAGAAGAAAGGACGCGGTAGACCTAAAGCTAACGGAACACAATcggaAGCGAAAGGGGATGCCAAAAAGAGAGGCAGACCCAATGTACCACCACCAAAATCAAAAGAGTCTAAAAATTCATCTGATGATGAACAAGCGCCTATTGCCAAAAGAGGGAGAGGTAGACCTAAAGGGTCAAAGAAAAAGGCAGCTGCTCCTAAAGGAAAGAGTGGATCTGGTGAGGGTCGAGGTCGTGGCAGGCCACGCAAAGACGCACCGCCACCTAAAAAGGATGCAGCCTCCACTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGGTTCTGACCAGTAA
Protein Sequence: MSDDGSTAVEKKGRGRPKANGTQSEAKGDAKKRGRPNVPPPKSKESKNSSDDEQAPIAKRGRGRPKGSKKKAAAPKGKSGSGEGRGRGRPRKDAPPPKKDAASTXXXXXXXXXXXGSDQ

Sequence clustering based on sequence similarity using MMseqs2