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Protein

Runt-related transcription factor 3

Gene

RUNX3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

CBF binds to the core site, 5'-PYGPYGGT-3', of a number of enhancers and promoters, including murine leukemia virus, polyomavirus enhancer, T-cell receptor enhancers, lck, IL-3 and GM-CSF promoters. In association with ZFHX3, upregulates CDKN1A promoter activity following TGF-beta stimulation (PubMed:20599712).1 Publication

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionActivator, DNA-binding
Biological processTranscription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-HSA-4411364 Binding of TCF/LEF:CTNNB1 to target gene promoters
R-HSA-8941855 RUNX3 regulates CDKN1A transcription
R-HSA-8941856 RUNX3 regulates NOTCH signaling
R-HSA-8941858 Regulation of RUNX3 expression and activity
R-HSA-8949275 RUNX3 Regulates Immune Response and Cell Migration
R-HSA-8951430 RUNX3 regulates WNT signaling
R-HSA-8951671 RUNX3 regulates YAP1-mediated transcription
R-HSA-8951911 RUNX3 regulates RUNX1-mediated transcription
R-HSA-8951936 RUNX3 regulates p14-ARF
R-HSA-8952158 RUNX3 regulates BCL2L11 (BIM) transcription
SIGNORiQ13761

Names & Taxonomyi

Protein namesi
Recommended name:
Runt-related transcription factor 3
Alternative name(s):
Acute myeloid leukemia 2 protein
Core-binding factor subunit alpha-3
Short name:
CBF-alpha-3
Oncogene AML-2
Polyomavirus enhancer-binding protein 2 alpha C subunit
Short name:
PEA2-alpha C
Short name:
PEBP2-alpha C
SL3-3 enhancer factor 1 alpha C subunit
SL3/AKV core-binding factor alpha C subunit
Gene namesi
Name:RUNX3
Synonyms:AML2, CBFA3, PEBP2A3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000020633.18
HGNCiHGNC:10473 RUNX3
MIMi600210 gene
neXtProtiNX_Q13761

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi864
OpenTargetsiENSG00000020633
PharmGKBiPA34886

Polymorphism and mutation databases

BioMutaiRUNX3
DMDMi17368453

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001746621 – 415Runt-related transcription factor 3Add BLAST415

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki192Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei243PhosphoserineCombined sources1

Post-translational modificationi

Phosphorylated on tyrosine residues by SRC. Phosphorylated by LCK and FYN.1 Publication

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ13761
MaxQBiQ13761
PaxDbiQ13761
PeptideAtlasiQ13761
PRIDEiQ13761

PTM databases

iPTMnetiQ13761
PhosphoSitePlusiQ13761
SwissPalmiQ13761

Expressioni

Tissue specificityi

Expressed in gastric cancer tissues (at protein level).1 Publication

Gene expression databases

BgeeiENSG00000020633
CleanExiHS_RUNX3
ExpressionAtlasiQ13761 baseline and differential
GenevisibleiQ13761 HS

Organism-specific databases

HPAiCAB025416
HPA004195
HPA059006

Interactioni

Subunit structurei

Heterodimer of an alpha and a beta subunit. The alpha subunit binds DNA as a monomer and through the Runt domain. DNA-binding is increased by heterodimerization. Interacts with TLE1 and SUV39H1. The tyrosine phosphorylated form (via runt domain) interacts with SRC (via protein kinase domain). Interacts with FYN and LCK. Interacts with FOXP3. Interacts with ZFHX3. Interacts with TBX21 (By similarity).By similarity5 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi10731230 interactors.
ELMiQ13761
IntActiQ13761 18 interactors.
MINTiQ13761
STRINGi9606.ENSP00000343477

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5W69X-ray2.80I/J/K/L133-141[»]
ProteinModelPortaliQ13761
SMRiQ13761
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini54 – 182RuntPROSITE-ProRule annotationAdd BLAST129

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi23 – 27Poly-Gly5
Compositional biasi191 – 415Pro/Ser/Thr-richAdd BLAST225

Domaini

A proline/serine/threonine rich region at the C-terminus is necessary for transcriptional activation of target genes.

Phylogenomic databases

eggNOGiKOG3982 Eukaryota
ENOG4111J4Y LUCA
GeneTreeiENSGT00390000016964
HOGENOMiHOG000045616
HOVERGENiHBG060268
InParanoidiQ13761
KOiK09279
OMAiGPFQANP
PhylomeDBiQ13761
TreeFamiTF321496

Family and domain databases

Gene3Di2.60.40.7201 hit
InterProiView protein in InterPro
IPR000040 AML1_Runt
IPR008967 p53-like_TF_DNA-bd
IPR012346 p53/RUNT-type_TF_DNA-bd_sf
IPR013524 Runt_dom
IPR013711 RunxI_C_dom
IPR016554 TF_Runt-rel_RUNX
PANTHERiPTHR11950 PTHR11950, 1 hit
PfamiView protein in Pfam
PF00853 Runt, 1 hit
PF08504 RunxI, 1 hit
PIRSFiPIRSF009374 TF_Runt-rel_RUNX, 1 hit
PRINTSiPR00967 ONCOGENEAML1
SUPFAMiSSF49417 SSF49417, 1 hit
PROSITEiView protein in PROSITE
PS51062 RUNT, 1 hit

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q13761-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MRIPVDPSTS RRFTPPSPAF PCGGGGGKMG ENSGALSAQA AVGPGGRARP
60 70 80 90 100
EVRSMVDVLA DHAGELVRTD SPNFLCSVLP SHWRCNKTLP VAFKVVALGD
110 120 130 140 150
VPDGTVVTVM AGNDENYSAE LRNASAVMKN QVARFNDLRF VGRSGRGKSF
160 170 180 190 200
TLTITVFTNP TQVATYHRAI KVTVDGPREP RRHRQKLEDQ TKPFPDRFGD
210 220 230 240 250
LERLRMRVTP STPSPRGSLS TTSHFSSQPQ TPIQGTSELN PFSDPRQFDR
260 270 280 290 300
SFPTLPTLTE SRFPDPRMHY PGAMSAAFPY SATPSGTSIS SLSVAGMPAT
310 320 330 340 350
SRFHHTYLPP PYPGAPQNQS GPFQANPSPY HLYYGTSSGS YQFSMVAGSS
360 370 380 390 400
SGGDRSPTRM LASCTSSAAS VAAGNLMNPS LGGQSDGVEA DGSHSNSPTA
410
LSTPGRMDEA VWRPY
Length:415
Mass (Da):44,356
Last modified:November 1, 1999 - v2
Checksum:i593FBFB3C4639BBD
GO
Isoform 2 (identifier: Q13761-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-5: MRIPV → MASNSIFDSFPTYSPTFIR

Show »
Length:429
Mass (Da):45,922
Checksum:iE9A43E96EDF82389
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti249D → V in CAA56093 (PubMed:7835892).Curated1
Sequence conflicti253P → S in CAA56093 (PubMed:7835892).Curated1
Sequence conflicti256P → S in CAA56093 (PubMed:7835892).Curated1
Sequence conflicti259T → S in CAA56093 (PubMed:7835892).Curated1
Sequence conflicti268 – 269MH → IY in CAA56093 (PubMed:7835892).Curated2
Sequence conflicti271P → T in CAA56093 (PubMed:7835892).Curated1
Sequence conflicti297 – 298MP → IS in CAA56093 (PubMed:7835892).Curated2

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0059491 – 5MRIPV → MASNSIFDSFPTYSPTFIR in isoform 2. 1 Publication5

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z35278 mRNA Translation: CAA84541.1
X79550 mRNA Translation: CAA56093.2
AL023096 Genomic DNA No translation available.
AL445471 Genomic DNA No translation available.
CH471134 Genomic DNA Translation: EAW95148.1
BC013362 mRNA Translation: AAH13362.1
U14520 Genomic DNA Translation: AAA86465.1
CCDSiCCDS257.1 [Q13761-1]
CCDS30633.1 [Q13761-2]
PIRiB55563
S60078
RefSeqiNP_001026850.1, NM_001031680.2 [Q13761-2]
NP_001307601.1, NM_001320672.1 [Q13761-2]
NP_004341.1, NM_004350.2 [Q13761-1]
XP_005246081.1, XM_005246024.4 [Q13761-2]
UniGeneiHs.170019

Genome annotation databases

EnsembliENST00000308873; ENSP00000308051; ENSG00000020633 [Q13761-1]
ENST00000338888; ENSP00000343477; ENSG00000020633 [Q13761-2]
ENST00000399916; ENSP00000382800; ENSG00000020633 [Q13761-2]
GeneIDi864
KEGGihsa:864
UCSCiuc001bjq.4 human [Q13761-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiRUNX3_HUMAN
AccessioniPrimary (citable) accession number: Q13761
Secondary accession number(s): B1AJV5, Q12969, Q13760
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 2, 2001
Last sequence update: November 1, 1999
Last modified: March 28, 2018
This is version 187 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome