The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Known motif	1 Monomer or homomultimer	In vivo/Misc source

Description

Description:

tumor protein p53 [Source:HGNC Symbol;Acc:HGNC:11998]

Entrez Summary

This gene encodes a tumor suppressor protein containing transcriptional activation, DNA binding, and oligomerization domains. The encoded protein responds to diverse cellular stresses to regulate expression of target genes, thereby inducing cell cycle arrest, apoptosis, senescence, DNA repair, or changes in metabolism. Mutations in this gene are associated with a variety of human cancers, including hereditary cancers such as Li-Fraumeni syndrome. Alternative splicing of this gene and the use of alternate promoters result in multiple transcript variants and isoforms. Additional isoforms have also been shown to result from the use of alternate translation initiation codons from identical transcript variants (PMIDs: 12032546, 20937277). [provided by RefSeq, Dec 2016]

Ensembl ID:

ENSG00000141510

External Link:

CisBP

Interpro

IPR002117; IPR008967; IPR010991; IPR011615; IPR013872; ;

Protein Domain:

ENSP00000269305

Protein Domain:

ENSP00000352610

Protein Domain:

ENSP00000410739

Protein Domain:

ENSP00000391127

Protein Domain:

ENSP00000391478

Protein Domain:

ENSP00000398846

Protein Domain:

ENSP00000484409

Protein Domain:

ENSP00000481179

Protein Domain:

ENSP00000478499

Protein Domain:

ENSP00000423862

Protein Domain:

ENSP00000458393

Protein Domain:

ENSP00000478219

Protein Domain:

ENSP00000480868

Protein Domain:

ENSP00000477531

Protein Domain:

ENSP00000482258

Protein Domain:

ENSP00000481401

Protein Domain:

ENSP00000484375

Protein Domain:

ENSP00000482537

Protein Domain:

ENSP00000481638

Protein Domain:

ENSP00000482222

Domain:

Protein: ENSP00000269305	DBD: p53	Other: P53_TAD, P53_tetramer
Protein: ENSP00000352610	DBD: p53	Other: P53_TAD
Protein: ENSP00000410739	DBD: p53	Other: P53_TAD
Protein: ENSP00000391127	DBD: p53	Other: P53_TAD
Protein: ENSP00000391478	DBD: p53	Other: P53_TAD, P53_tetramer
Protein: ENSP00000398846	DBD: p53	Other: P53_TAD
Protein: ENSP00000484409	DBD: p53	Other:
Protein: ENSP00000481179	DBD: p53	Other: P53_tetramer
Protein: ENSP00000478499	DBD: p53	Other:
Protein: ENSP00000423862	DBD: p53	Other: P53_TAD
Protein: ENSP00000458393	DBD: p53	Other:
Protein: ENSP00000478219	DBD: p53	Other: P53_tetramer
Protein: ENSP00000480868	DBD: p53	Other:
Protein: ENSP00000477531	DBD: p53	Other:
Protein: ENSP00000482258	DBD: p53	Other: P53_TAD
Protein: ENSP00000481401	DBD: p53	Other:
Protein: ENSP00000484375	DBD: p53	Other: P53_tetramer
Protein: ENSP00000482537	DBD: p53	Other: P53_tetramer
Protein: ENSP00000481638	DBD: p53	Other: P53_tetramer
Protein: ENSP00000482222	DBD: p53	Other:

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_DNA Binding Transactivation_ PMIDS:12082536
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:0000981 sequence-specific DNA binding RNA polymerase II transcription factor activity IDA - PMID:24652652 GO:0001228 RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor IDA - PMID:17146433 GO:0003700 sequence-specific DNA binding transcription factor activity IDA - PMID:18549481, PMID:7587074
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
SELEX	JASPAR		Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
Misc	HOMER		Direct

Structure

Structure	PDB	1TSR

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

Name
Email
Comment
Reference

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{"regions": [{"startStyle": "curved", "end": 289, "endStyle": "curved", "aliStart": 95, "text": "P53", "colour": "#228B22", "aliEnd": 288, "start": 95, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 289, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 95, "scoreName": "E-value", "accession": "PF00870.16", "start": 95, "score": 2.0999999999999996e-115, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 288}}, {"startStyle": "straight", "end": 29, "endStyle": "straight", "aliStart": 5, "text": "P53_TAD", "colour": "#9999ff", "aliEnd": 29, "start": 5, "href": "http://pfam.xfam.org/family/PF08563.9", "type": "pfama", "display": "true", "metadata": {"end": 29, "description": "The binding of the p53 transactivation domain by regulatory proteins regulates p53 transcription activation.  This motif is comprised of a single amphipathic alpha helix and contains a highly conserved sequence [1-2].", "database": "PfamA", "aliStart": 5, "scoreName": "E-value", "accession": "PF08563.9", "start": 5, "score": 2.4e-12, "identifier": "P53 transactivation motif", "type": "DBD", "aliEnd": 29}}], "length": 344}

{"regions": [{"startStyle": "curved", "end": 269, "endStyle": "jagged", "aliStart": 95, "text": "P53", "colour": "#228B22", "aliEnd": 260, "start": 95, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 269, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 95, "scoreName": "E-value", "accession": "PF00870.16", "start": 95, "score": 4.0999999999999986e-96, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 260}}, {"startStyle": "straight", "end": 29, "endStyle": "straight", "aliStart": 5, "text": "P53_TAD", "colour": "#9999ff", "aliEnd": 29, "start": 5, "href": "http://pfam.xfam.org/family/PF08563.9", "type": "pfama", "display": "true", "metadata": {"end": 29, "description": "The binding of the p53 transactivation domain by regulatory proteins regulates p53 transcription activation.  This motif is comprised of a single amphipathic alpha helix and contains a highly conserved sequence [1-2].", "database": "PfamA", "aliStart": 5, "scoreName": "E-value", "accession": "PF08563.9", "start": 5, "score": 1.9e-12, "identifier": "P53 transactivation motif", "type": "DBD", "aliEnd": 29}}], "length": 286}

{"regions": [{"startStyle": "curved", "end": 289, "endStyle": "curved", "aliStart": 95, "text": "P53", "colour": "#228B22", "aliEnd": 288, "start": 95, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 289, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 95, "scoreName": "E-value", "accession": "PF00870.16", "start": 95, "score": 1.9999999999999994e-115, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 288}}, {"startStyle": "straight", "end": 29, "endStyle": "straight", "aliStart": 5, "text": "P53_TAD", "colour": "#9999ff", "aliEnd": 29, "start": 5, "href": "http://pfam.xfam.org/family/PF08563.9", "type": "pfama", "display": "true", "metadata": {"end": 29, "description": "The binding of the p53 transactivation domain by regulatory proteins regulates p53 transcription activation.  This motif is comprised of a single amphipathic alpha helix and contains a highly conserved sequence [1-2].", "database": "PfamA", "aliStart": 5, "scoreName": "E-value", "accession": "PF08563.9", "start": 5, "score": 2.4e-12, "identifier": "P53 transactivation motif", "type": "DBD", "aliEnd": 29}}], "length": 342}

{"regions": [{"startStyle": "curved", "end": 289, "endStyle": "curved", "aliStart": 95, "text": "P53", "colour": "#228B22", "aliEnd": 288, "start": 95, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 289, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 95, "scoreName": "E-value", "accession": "PF00870.16", "start": 95, "score": 2.0999999999999996e-115, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 288}}, {"startStyle": "straight", "end": 29, "endStyle": "straight", "aliStart": 5, "text": "P53_TAD", "colour": "#9999ff", "aliEnd": 29, "start": 5, "href": "http://pfam.xfam.org/family/PF08563.9", "type": "pfama", "display": "true", "metadata": {"end": 29, "description": "The binding of the p53 transactivation domain by regulatory proteins regulates p53 transcription activation.  This motif is comprised of a single amphipathic alpha helix and contains a highly conserved sequence [1-2].", "database": "PfamA", "aliStart": 5, "scoreName": "E-value", "accession": "PF08563.9", "start": 5, "score": 2.5000000000000003e-12, "identifier": "P53 transactivation motif", "type": "DBD", "aliEnd": 29}}], "length": 347}

{"regions": [{"startStyle": "jagged", "end": 157, "endStyle": "curved", "aliStart": 1, "text": "P53", "colour": "#228B22", "aliEnd": 156, "start": 1, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 157, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 1, "scoreName": "E-value", "accession": "PF00870.16", "start": 1, "score": 3.4999999999999994e-94, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 156}}, {"startStyle": "straight", "end": 226, "endStyle": "straight", "aliStart": 187, "text": "P53_tetramer", "colour": "#9999ff", "aliEnd": 225, "start": 187, "href": "http://pfam.xfam.org/family/PF07710.9", "type": "pfama", "display": "true", "metadata": {"end": 226, "description": NaN, "database": "PfamA", "aliStart": 187, "scoreName": "E-value", "accession": "PF07710.9", "start": 187, "score": 1.2e-18, "identifier": "P53 tetramerisation motif", "type": "DBD", "aliEnd": 225}}], "length": 262}

{"regions": [{"startStyle": "jagged", "end": 155, "endStyle": "jagged", "aliStart": 31, "text": "P53", "colour": "#228B22", "aliEnd": 155, "start": 28, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 155, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 31, "scoreName": "E-value", "accession": "PF00870.16", "start": 28, "score": 9.899999999999998e-72, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 155}}, {"startStyle": "straight", "end": 29, "endStyle": "straight", "aliStart": 5, "text": "P53_TAD", "colour": "#9999ff", "aliEnd": 29, "start": 5, "href": "http://pfam.xfam.org/family/PF08563.9", "type": "pfama", "display": "true", "metadata": {"end": 29, "description": "The binding of the p53 transactivation domain by regulatory proteins regulates p53 transcription activation.  This motif is comprised of a single amphipathic alpha helix and contains a highly conserved sequence [1-2].", "database": "PfamA", "aliStart": 5, "scoreName": "E-value", "accession": "PF08563.9", "start": 5, "score": 9.2e-13, "identifier": "P53 transactivation motif", "type": "DBD", "aliEnd": 29}}], "length": 155}

{"regions": [{"startStyle": "curved", "end": 250, "endStyle": "curved", "aliStart": 56, "text": "P53", "colour": "#228B22", "aliEnd": 249, "start": 56, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 250, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 56, "scoreName": "E-value", "accession": "PF00870.16", "start": 56, "score": 1.9999999999999994e-115, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 249}}, {"startStyle": "straight", "end": 319, "endStyle": "straight", "aliStart": 280, "text": "P53_tetramer", "colour": "#9999ff", "aliEnd": 318, "start": 280, "href": "http://pfam.xfam.org/family/PF07710.9", "type": "pfama", "display": "true", "metadata": {"end": 319, "description": NaN, "database": "PfamA", "aliStart": 280, "scoreName": "E-value", "accession": "PF07710.9", "start": 280, "score": 2e-18, "identifier": "P53 tetramerisation motif", "type": "DBD", "aliEnd": 318}}], "length": 355}

{"regions": [{"startStyle": "curved", "end": 289, "endStyle": "curved", "aliStart": 95, "text": "P53", "colour": "#228B22", "aliEnd": 288, "start": 95, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 289, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 95, "scoreName": "E-value", "accession": "PF00870.16", "start": 95, "score": 1.9999999999999994e-115, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 288}}, {"startStyle": "straight", "end": 29, "endStyle": "straight", "aliStart": 5, "text": "P53_TAD", "colour": "#9999ff", "aliEnd": 29, "start": 5, "href": "http://pfam.xfam.org/family/PF08563.9", "type": "pfama", "display": "true", "metadata": {"end": 29, "description": "The binding of the p53 transactivation domain by regulatory proteins regulates p53 transcription activation.  This motif is comprised of a single amphipathic alpha helix and contains a highly conserved sequence [1-2].", "database": "PfamA", "aliStart": 5, "scoreName": "E-value", "accession": "PF08563.9", "start": 5, "score": 2.4e-12, "identifier": "P53 transactivation motif", "type": "DBD", "aliEnd": 29}}], "length": 342}

{"regions": [{"startStyle": "jagged", "end": 130, "endStyle": "curved", "aliStart": 1, "text": "P53", "colour": "#228B22", "aliEnd": 129, "start": 1, "href": "http://pfam.xfam.org/family/PF00870.16", "type": "pfama", "display": "true", "metadata": {"end": 130, "description": "This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.", "database": "PfamA", "aliStart": 1, "scoreName": "E-value", "accession": "PF00870.16", "start": 1, "score": 8.599999999999999e-77, "identifier": "P53 DNA-binding domain", "type": "DBD", "aliEnd": 129}}, {"startStyle": "straight", "end": 199, "endStyle": "straight", "aliStart": 160, "text": "P53_tetramer", "colour": "#9999ff", "aliEnd": 198, "start": 160, "href": "http://pfam.xfam.org/family/PF07710.9", "type": "pfama", "display": "true", "metadata": {"end": 199, "description": NaN, "database": "PfamA", "aliStart": 160, "scoreName": "E-value", "accession": "PF07710.9", "start": 160, "score": 9.5e-19, "identifier": "P53 tetramerisation motif", "type": "DBD", "aliEnd": 198}}], "length": 235}

TF Info Page for TP53 (p53)

Conclusion

Description

Previous Annotations

DNA-Binding

Published Motif Data

Structure

Experimental History

External Contribution