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 0.015 1.7e+02 1.3 0.9 9 16 9 16 2 18 0.77

2 6 1 1.1e+04 -5.6 2.1 6 11 57 62 55 62 0.76

3 6 0.0059 64 2.6 6.6 8 15 87 94 85 99 0.93

4 6 0.0033 36 3.4 1.1 8 15 132 139 127 140 0.89

5 6 1.8e-10 2e-06 26.7 7.3 4 21 179 196 177 197 0.93

6 6 1 1.1e+04 -5.9 5.5 12 18 211 217 210 221 0.58

#	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	0.015	1.7e+02	1.3	0.9	9	16	9	16	2	18	0.77
2	6	1	1.1e+04	-5.6	2.1	6	11	57	62	55	62	0.76
3	6	0.0059	64	2.6	6.6	8	15	87	94	85	99	0.93
4	6	0.0033	36	3.4	1.1	8	15	132	139	127	140	0.89
5	6	1.8e-10	2e-06	26.7	7.3	4	21	179	196	177	197	0.93
6	6	1	1.1e+04	-5.9	5.5	12	18	211	217	210	221	0.58

Coding Sequence: ATGACCGAGGAAACAGCCCCAGTTAAGAAGGGACGTGGACGCCCCAGAAAAAGCGACGTAGCTGTAAAAGAGTCACCGAAGGAGAAAAAGAAGGCGGCGAAGGAAGTGGTAGAACCGCCGCCAGATGTAGAGACTGATTCGGATACGGAGGAAGAAAGATCAGTATCGCCTCCGCCTAAAGCACCGCCCAAATCGCCAGCTGGTAAAAAACGAGCGGCCGATCCGCAGCCGGAAACAGACAAGAATACAGCAACACCTCCGAAGCGAGGTCGTGGCCGTCCGCCAAAGGCAGTGAAGAAGGATATTAGAGATGCCGGCAAAGGATACTCGGATATCCGTGCGGCACACTGTCTCAGGAAGGACGACACAATGTCTGATGCAGAGGTCGTTGAACCGAAGAAGGGTCGTGGACGCCCACCAAACCCTGACAAGAACAGCGTGGCACCGAAAAAGAGGGCCCGCGCTCTTTCGCCGAAAGAGTCTAAGCTAGCCGAGGAACGCGAAAAGGAGAAAACCGTTGTATCGGACGATGGAGAGGAACCGTCCCCGAAACGCGGACGTGGCAGACCGAAAGGAAGCACCAAGAAGGCGGCAAAAGCGACCAAGAAAGCTCCTGCAGCACCGGTCGGTAGAGGCCGTGGCCGGGGTCGAAAGAAACCAGTCAAAGAGGAATCCTCCGAAGAGGAGgatgacgatgacgatgaggatgacgaGCAGGAGGATAGCGAGGGCAATGAGGAAAATTATGAAAATGAAGAGTCCGATTCGTAA
Protein Sequence: MTEETAPVKKGRGRPRKSDVAVKESPKEKKKAAKEVVEPPPDVETDSDTEEERSVSPPPKAPPKSPAGKKRAADPQPETDKNTATPPKRGRGRPPKAVKKDIRDAGKGYSDIRAAHCLRKDDTMSDAEVVEPKKGRGRPPNPDKNSVAPKKRARALSPKESKLAEEREKEKTVVSDDGEEPSPKRGRGRPKGSTKKAAKATKKAPAAPVGRGRGRGRKKPVKEESSEEEDDDDDEDDEQEDSEGNEENYENEESDS

Sequence clustering based on sequence similarity using MMseqs2