RUNX3
Runt-related transcription factor 3
Also known as: AML2, CBFA3, PEBP2A3, RUNX3_HUMAN
Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene
Protein identityUniProt · HPA
- UniProt accession
- Q13761
- Gene
- RUNX3
- Ensembl
- ENSG00000020633
- Chromosome
- 1
- Canonical length
- 415 aa
- Protein class
- Predicted intracellular proteins, Transcription factors
- Subcellular location
- Nucleoplasm,Vesicles,Cytosol
OverviewNCBI Gene
This gene encodes a member of the runt domain-containing family of transcription factors. A heterodimer of this protein and a beta subunit forms a complex that binds to the core DNA sequence 5'-PYGPYGGT-3' found in a number of enhancers and promoters, and can either activate or suppress transcription. It also interacts with other transcription factors. It functions as a tumor suppressor, and the gene is frequently deleted or transcriptionally silenced in cancer. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016]
Canonical amino-acid sequenceUniProt
415 residues, UniProt reviewed canonical sequence.
>Q13761|RUNX3
1 MRIPVDPSTS RRFTPPSPAF PCGGGGGKMG ENSGALSAQA AVGPGGRARP EVRSMVDVLA
61 DHAGELVRTD SPNFLCSVLP SHWRCNKTLP VAFKVVALGD VPDGTVVTVM AGNDENYSAE
121 LRNASAVMKN QVARFNDLRF VGRSGRGKSF TLTITVFTNP TQVATYHRAI KVTVDGPREP
181 RRHRQKLEDQ TKPFPDRFGD LERLRMRVTP STPSPRGSLS TTSHFSSQPQ TPIQGTSELN
241 PFSDPRQFDR SFPTLPTLTE SRFPDPRMHY PGAMSAAFPY SATPSGTSIS SLSVAGMPAT
301 SRFHHTYLPP PYPGAPQNQS GPFQANPSPY HLYYGTSSGS YQFSMVAGSS SGGDRSPTRM
361 LASCTSSAAS VAAGNLMNPS LGGQSDGVEA DGSHSNSPTA LSTPGRMDEA VWRPYLocalizationUniProt · AlphaFold · HPA
Whether an antibody against RUNX3 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.
- Antibody reachability
- Intracellular
- Secreted
- No
- Transmembrane segments
- 0
- Mean surface accessibility (rSASA)
- 0.6
- Highest tissue expression
- 66 nTPM
Expression across tissuesHPA
Tissue
- bone marrow: 66 nTPM
- lymph node: 33 nTPM
- spleen: 32 nTPM
- tonsil: 28 nTPM
- appendix: 20 nTPM
- cervix: 19 nTPM
Single-cell type
- nk-cells: 583 nCPM
- t-cells: 518 nCPM
- innate lymphoid cells: 272 nCPM
- cdc: 179 nCPM
- b-cells: 123 nCPM
- melanocytes: 110 nCPM
Immune cell
- NK-cell: 25 nTPM
- gdT-cell: 20 nTPM
- memory CD8 T-cell: 18 nTPM
- naive CD8 T-cell: 13 nTPM
- MAIT T-cell: 11 nTPM
- T-reg: 7.6 nTPM
Brain region
- medulla oblongata: 4.1 nTPM
- white matter: 3.5 nTPM
- midbrain: 3.3 nTPM
- thalamus: 3.2 nTPM
- pons: 3.1 nTPM
- spinal cord: 2.7 nTPM
Genetic constraint and essentialitygnomAD · DepMap
Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.
- gnomAD LOEUF (loss-of-function intolerance)
- 0.42
- gnomAD pLI
- 0.84
- gnomAD missense Z
- 2.69
- DepMap mean gene effect
- -0.01
- DepMap dependency class
- selective
Cancer expressionTCGA
Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).
OntologyGO
Biological processes
- chondrocyte differentiation
- hemopoiesis
- negative regulation of CD4-positive, alpha-beta T cell differentiation
- negative regulation of cell cycle
- negative regulation of epithelial cell proliferation
- negative regulation of transcription by RNA polymerase II
- neuron differentiation
- ossification
- peripheral nervous system neuron development
- positive regulation of CD8-positive, alpha-beta T cell differentiation
- positive regulation of DNA-templated transcription
- protein phosphorylation
- regulation of cell differentiation
- regulation of DNA-templated transcription
- regulation of transcription by RNA polymerase II
- response to transforming growth factor beta
Molecular functions
- ATP binding
- DNA-binding transcription factor activity
- DNA-binding transcription factor activity, RNA polymerase II-specific
- RNA polymerase II cis-regulatory region sequence-specific DNA binding
- RNA polymerase II transcription regulatory region sequence-specific DNA binding
- sequence-specific double-stranded DNA binding
- transcription corepressor binding
Cellular components
Protein domainsUniProt · Pfam · InterPro
KeywordsUniProt
InteractionsUniProt · HPA
Protein binding partners of RUNX3 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.
Antibody and autoantibody relevanceSeroatlas analysis
Seroatlas reads RUNX3 as an antibody target. Whether an autoantibody or antibody against RUNX3 could matter depends on whether native RUNX3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.
RUNX3 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.
Annotation status
The present source text does not explicitly label RUNX3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.
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