TF Info Page for HMGA1 (AT hook)


Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain


Description: high mobility group AT-hook 1 [Source:HGNC Symbol;Acc:HGNC:5010]
Entrez Summary This gene encodes a chromatin-associated protein involved in the regulation of gene transcription, integration of retroviruses into chromosomes, and the metastatic progression of cancer cells. The encoded protein preferentially binds to the minor groove of AT-rich regions in double-stranded DNA. Multiple transcript variants encoding different isoforms have been found for this gene. Pseudogenes of this gene have been identified on multiple chromosomes. [provided by RefSeq, Jan 2016]
Ensembl ID: ENSG00000137309
External Link: CisBP
Interpro IPR000116; IPR000637; IPR017956; IPR020478;
Protein Domain: ENSP00000308227
Protein Domain: ENSP00000288245
Protein Domain: ENSP00000363230
Protein Domain: ENSP00000385693
Protein Domain: ENSP00000399888
Protein: ENSP00000308227DBD: AT hookOther:
Protein: ENSP00000288245DBD: AT hookOther:
Protein: ENSP00000363230DBD: AT hookOther:
Protein: ENSP00000385693DBD: AT hookOther:
Protein: ENSP00000399888DBD: AT hookOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
Transcription Factor Binding
tf co-factor binding_DNA Binding_
PMIDS:9199299 12907668
Vaquerizas 2009 TF classification
"a" Has direct evidence of TF function;
"b" Has evidence for an orthologous TF;
"c" contains likely DBDs, but has no functional evidence;
"x" is an unlikely TF such as predicted gene, genes with likely non-specific DBDs or that have function outside transcription;
"other" category contains proteins without clear DBDs they curated from external sources.
CisBP considers it as a TF? Yes
TFclass considers it as a TF? Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" Yes
GO-Info GO:0001205
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involv
ISS - GO_REF:0000024
sequence-specific DNA binding transcription factor activity
IBA - GO_REF:0000033
Initial Assessment
1a1 Protein has a high confidence PWM (HT-SELEX, PBM or B1H model) or there is a crystal structure that supports sequence specific DNA binding;
1a2 There is high confidence data for a close ortholog (as defined in CisBP);
2a1 There is lower confidence direct evidence, such as a Jaspar, Hocomoco or Transfac model;
2a2 There is lower confidence evidence for an close ortholog;
3a There is decent circumstantial evidence for its role as a TF or not;
4a Two or more datasets predict it as a TF;
5a One of the source datasets predicts is as a TF
3a, decent circumstantial evidence for its role as
TF has conditional DNA-binding requirements


Published Motif Data

Source Annotation Motif Evidence
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
PBMZoo_01Inferred - ENSPPYG00000004736 (74% AA Identity, Pongo abelii)
PBMDREAM_contestInferred - Hmga2 (74% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HMGA2 (74% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HMGA2 (74% AA Identity, Homo sapiens)
PBMZoo_01Inferred - ANIA_01690 (53% AA Identity, Aspergillus nidulans)
PBMTF_EvolutionUnpublished DataInferred - FGRRES_05233 (51% AA Identity, Fusarium graminearum)


Structure PDB 2EZD

Experimental History

Method Constructs
Tried in PBM?
(Whether the protein was tried in PBM or not)
Tried in HT-SELEX
(Whether the protein was tried in HT-SELEX or not, and if so, then what kind of clones were tested)
Other Information?
(Tried with another method and failed?)

External Contribution