TF Info Page for SOX5 (HMG/Sox)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro

Description

Description: SRY-box 5 [Source:HGNC Symbol;Acc:HGNC:11201]
Entrez Summary NA
Ensembl ID: ENSG00000134532
External Link: CisBP
Interpro IPR009071; ;
Protein Domain: ENSP00000379328
Protein Domain: ENSP00000398273
Protein Domain: ENSP00000437487
Protein Domain: ENSP00000393240
Protein Domain: ENSP00000441973
Protein Domain: ENSP00000443520
Protein Domain: ENSP00000442119
Domain:
Protein: ENSP00000379328DBD: HMGOther: CENP-K
Protein: ENSP00000398273DBD: HMGOther:
Protein: ENSP00000437487DBD: HMGOther:
Protein: ENSP00000393240DBD: HMGOther:
Protein: ENSP00000441973DBD: HMGOther:
Protein: ENSP00000443520DBD: HMGOther:
Protein: ENSP00000442119DBD: HMGOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:1396566 8078769 9755172
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.
a
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:0003700
sequence-specific DNA binding transcription factor activity
TAS - PMID:8812465
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
1a1, Direct HQ evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
SMiLE-seqIsakova2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBadis09Inferred - Sox5 (100% AA Identity, Mus musculus)
SELEXJASPARInferred - Sox5 (100% AA Identity, Mus musculus)
PBMBadis09Inferred - Sox13 (94% AA Identity, Mus musculus)
MiscHocoMocoInferred - SOX13 (94% AA Identity, Homo sapiens)
SMiLE-seqIsakova2017Inferred - SOX6 (92% AA Identity, Homo sapiens)
PBMDREAM_contestInferred - Sox6 (92% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - SOX6 (92% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Sox6 (92% AA Identity, Mus musculus)
MiscHOMERInferred - Sox6 (92% AA Identity, Mus musculus)

Structure

Structure PDB Not_Covered

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