Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ACKR3 Gene

Aliases for ACKR3 Gene

  • Atypical Chemokine Receptor 3 2 3 5
  • Chemokine Orphan Receptor 1 2 3 4
  • G-Protein Coupled Receptor RDC1 Homolog 3 4
  • Chemokine (C-X-C Motif) Receptor 7 2 3
  • C-X-C Chemokine Receptor Type 7 3 4
  • G-Protein Coupled Receptor 159 3 4
  • CMKOR1 3 4
  • CXC-R7 3 4
  • CXCR-7 3 4
  • GPR159 3 4
  • CXCR7 3 4
  • RDC-1 3 4
  • RDC1 3 4
  • G Protein-Coupled Receptor 3

External Ids for ACKR3 Gene

Previous HGNC Symbols for ACKR3 Gene

  • CMKOR1
  • CXCR7

Previous GeneCards Identifiers for ACKR3 Gene

  • GC02P237477
  • GC02P236560

Summaries for ACKR3 Gene

Entrez Gene Summary for ACKR3 Gene

  • This gene encodes a member of the G-protein coupled receptor family. Although this protein was earlier thought to be a receptor for vasoactive intestinal peptide (VIP), it is now considered to be an orphan receptor, in that its endogenous ligand has not been identified. The protein is also a coreceptor for human immunodeficiency viruses (HIV). Translocations involving this gene and HMGA2 on chromosome 12 have been observed in lipomas. [provided by RefSeq, Jul 2008]

GeneCards Summary for ACKR3 Gene

ACKR3 (Atypical Chemokine Receptor 3) is a Protein Coding gene. Diseases associated with ACKR3 include Lymphoplasmacytic Lymphoma and Whim Syndrome. Among its related pathways are Peptide ligand-binding receptors and Signaling by GPCR. Gene Ontology (GO) annotations related to this gene include G-protein coupled receptor activity and coreceptor activity. An important paralog of this gene is GPR182.

UniProtKB/Swiss-Prot for ACKR3 Gene

  • Atypical chemokine receptor that controls chemokine levels and localization via high-affinity chemokine binding that is uncoupled from classic ligand-driven signal transduction cascades, resulting instead in chemokine sequestration, degradation, or transcytosis. Also known as interceptor (internalizing receptor) or chemokine-scavenging receptor or chemokine decoy receptor. Acts as a receptor for chemokines CXCL11 and CXCL12/SDF1. Chemokine binding does not activate G-protein-mediated signal transduction but instead induces beta-arrestin recruitment, leading to ligand internalization and activation of MAPK signaling pathway. Required for regulation of CXCR4 protein levels in migrating interneurons, thereby adapting their chemokine responsiveness. In glioma cells, transduces signals via MEK/ERK pathway, mediating resistance to apoptosis. Promotes cell growth and survival. Not involved in cell migration, adhesion or proliferation of normal hematopoietic progenitors but activated by CXCL11 in malignant hemapoietic cells, leading to phosphorylation of ERK1/2 (MAPK3/MAPK1) and enhanced cell adhesion and migration. Plays a regulatory role in CXCR4-mediated activation of cell surface integrins by CXCL12. Required for heart valve development. Acts as coreceptor with CXCR4 for a restricted number of HIV isolates.

Tocris Summary for ACKR3 Gene

  • Chemokine CXC receptors (CXCRs) predominantly recognize CXC chemokines. CXC chemokines are distinguished by having four conserved cysteines, with the first two cysteines being separated by a single amino acid. There are six chemokine CXC receptors.

Gene Wiki entry for ACKR3 Gene

Additional gene information for ACKR3 Gene

No data available for CIViC summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ACKR3 Gene

Genomics for ACKR3 Gene

GeneHancer (GH) Regulatory Elements for ACKR3 Gene

Promoters and enhancers for ACKR3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02I236564 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 550.3 +32.5 32488 11 HDGF PKNOX1 RB1 SIN3A BATF IRF4 RAD21 ZNF366 ZNF207 ZNF143 GC02P236569 ACKR3 IQCA1 LOC105373991
GH02I236536 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 550.8 +0.6 551 3 HDGF PKNOX1 SMAD1 RB1 EBF1 BMI1 YBX1 BATF IRF4 ATF7 ACKR3 IQCA1 LOC105373991
GH02I236534 Enhancer 0.3 ENCODE 550.8 -1.9 -1921 1 JUN ACKR3 IQCA1
GH02I236870 Enhancer 1.2 FANTOM5 Ensembl ENCODE 14.3 +334.5 334546 2.7 FOXA2 JUN MAX RAD21 ZFHX2 POLR2A ZNF157 FOSL2 FOS EGR2 ACKR3 GC02M236870 GC02P236783
GH02I236641 Enhancer 1 Ensembl ENCODE 11.4 +105.8 105842 2.3 KLF1 ZBTB21 JUN MAX KLF17 RAD21 BRCA1 RFX5 HIC1 ZNF335 ACKR3 IQCA1 LOC105373947 GC02P236695
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ACKR3 on UCSC Golden Path with GeneCards custom track

Genomic Locations for ACKR3 Gene

Genomic Locations for ACKR3 Gene
chr2:236,537,126-236,582,358
(GRCh38/hg38)
Size:
45,233 bases
Orientation:
Plus strand
chr2:237,476,430-237,491,001
(GRCh37/hg19)

Genomic View for ACKR3 Gene

Genes around ACKR3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ACKR3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ACKR3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ACKR3 Gene

Proteins for ACKR3 Gene

  • Protein details for ACKR3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P25106-ACKR3_HUMAN
    Recommended name:
    Atypical chemokine receptor 3
    Protein Accession:
    P25106
    Secondary Accessions:
    • A8K6J4
    • Q53RV4
    • Q8NE10
    • Q92938
    • Q92986

    Protein attributes for ACKR3 Gene

    Size:
    362 amino acids
    Molecular mass:
    41493 Da
    Quaternary structure:
    • Homodimer. Can form heterodimers with CXCR4; heterodimerization may regulate CXCR4 signaling activity. Interacts with ARRB1 and ARRB2.

neXtProt entry for ACKR3 Gene

Post-translational modifications for ACKR3 Gene

  • The Ser/Thr residues in the C-terminal cytoplasmic tail may be phosphorylated.
  • Ubiquitinated at the Lys residues in its C-terminal cytoplasmic tail and is essential for correct trafficking from and to the cell membrane. Deubiquitinated by CXCL12-stimulation in a reversible manner.
  • Glycosylation at posLast=1313, Asn22, and Asn39

Other Protein References for ACKR3 Gene

No data available for DME Specific Peptides for ACKR3 Gene

Domains & Families for ACKR3 Gene

Gene Families for ACKR3 Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • Cancer-related genes
  • G-protein coupled receptors
  • Predicted membrane proteins

Protein Domains for ACKR3 Gene

Suggested Antigen Peptide Sequences for ACKR3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P25106

UniProtKB/Swiss-Prot:

ACKR3_HUMAN :
  • The C-terminal cytoplasmic tail, plays a key role in: correct trafficking to the cell membrane, recruitment of beta-arrestin, ubiquitination, and in chemokine scavenging and signaling functions. The Ser/Thr residues and the Lys residues in the C-terminal cytoplasmic tail are essential for beta-arrestin recruitment and ubiquitination respectively.
  • Belongs to the G-protein coupled receptor 1 family. Atypical chemokine receptor subfamily.
Domain:
  • The C-terminal cytoplasmic tail, plays a key role in: correct trafficking to the cell membrane, recruitment of beta-arrestin, ubiquitination, and in chemokine scavenging and signaling functions. The Ser/Thr residues and the Lys residues in the C-terminal cytoplasmic tail are essential for beta-arrestin recruitment and ubiquitination respectively.
Family:
  • Belongs to the G-protein coupled receptor 1 family. Atypical chemokine receptor subfamily.
genes like me logo Genes that share domains with ACKR3: view

Function for ACKR3 Gene

Molecular function for ACKR3 Gene

UniProtKB/Swiss-Prot Function:
Atypical chemokine receptor that controls chemokine levels and localization via high-affinity chemokine binding that is uncoupled from classic ligand-driven signal transduction cascades, resulting instead in chemokine sequestration, degradation, or transcytosis. Also known as interceptor (internalizing receptor) or chemokine-scavenging receptor or chemokine decoy receptor. Acts as a receptor for chemokines CXCL11 and CXCL12/SDF1. Chemokine binding does not activate G-protein-mediated signal transduction but instead induces beta-arrestin recruitment, leading to ligand internalization and activation of MAPK signaling pathway. Required for regulation of CXCR4 protein levels in migrating interneurons, thereby adapting their chemokine responsiveness. In glioma cells, transduces signals via MEK/ERK pathway, mediating resistance to apoptosis. Promotes cell growth and survival. Not involved in cell migration, adhesion or proliferation of normal hematopoietic progenitors but activated by CXCL11 in malignant hemapoietic cells, leading to phosphorylation of ERK1/2 (MAPK3/MAPK1) and enhanced cell adhesion and migration. Plays a regulatory role in CXCR4-mediated activation of cell surface integrins by CXCL12. Required for heart valve development. Acts as coreceptor with CXCR4 for a restricted number of HIV isolates.
UniProtKB/Swiss-Prot Induction:
Up-regulated during cell differentiation in glioma cells.

Phenotypes From GWAS Catalog for ACKR3 Gene

Gene Ontology (GO) - Molecular Function for ACKR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004871 signal transducer activity IEA --
GO:0004930 G-protein coupled receptor activity IEA --
GO:0005044 scavenger receptor activity IMP 22300987
GO:0005515 protein binding IPI 22300987
GO:0015026 coreceptor activity IEA --
genes like me logo Genes that share ontologies with ACKR3: view
genes like me logo Genes that share phenotypes with ACKR3: view

Animal Models for ACKR3 Gene

MGI Knock Outs for ACKR3:

Animal Model Products

miRNA for ACKR3 Gene

Clone Products

  • Addgene plasmids for ACKR3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ACKR3 Gene

Localization for ACKR3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ACKR3 Gene

Cell membrane; Multi-pass membrane protein. Cytoplasm, perinuclear region. Early endosome. Recycling endosome. Note=Predominantly localizes to endocytic vesicles, and upon stimulation by the ligand is internalized via clathrin-coated pits in a beta-arrestin-dependent manner. Once internalized, the ligand dissociates from the receptor, and is targeted to degradation while the receptor is recycled back to the cell membrane.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ACKR3 gene
Compartment Confidence
plasma membrane 5
endosome 5
nucleus 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Plasma membrane (3)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ACKR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005768 endosome IEA,IDA 22300987
GO:0005769 early endosome IEA --
GO:0005886 plasma membrane TAS --
genes like me logo Genes that share ontologies with ACKR3: view

Pathways & Interactions for ACKR3 Gene

genes like me logo Genes that share pathways with ACKR3: view

SIGNOR curated interactions for ACKR3 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for ACKR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001525 angiogenesis IEA --
GO:0001570 vasculogenesis IEA --
GO:0006935 chemotaxis IEA --
GO:0007155 cell adhesion IEA --
GO:0007165 signal transduction IEA --
genes like me logo Genes that share ontologies with ACKR3: view

Drugs & Compounds for ACKR3 Gene

(7) Drugs for ACKR3 Gene - From: ApexBio, DGIdb, and IUPHAR

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Plerixafor Approved Pharma Agonist, antagonist 0
TC14012 Pharma Agonist 0
VUF 11207 fumarate Pharma 0
CXCL11 Pharma Antagonist 0
CXCL12 Pharma 0

(4) Additional Compounds for ACKR3 Gene - From: IUPHAR

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
SDF-1alpha
Agonist

(1) ApexBio Compounds for ACKR3 Gene

Compound Action Cas Number
VUF 11207 fumarate
genes like me logo Genes that share compounds with ACKR3: view

Drug Products

Transcripts for ACKR3 Gene

Clone Products

  • Addgene plasmids for ACKR3

Alternative Splicing Database (ASD) splice patterns (SP) for ACKR3 Gene

No ASD Table

Relevant External Links for ACKR3 Gene

GeneLoc Exon Structure for
ACKR3
ECgene alternative splicing isoforms for
ACKR3

Expression for ACKR3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ACKR3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ACKR3 Gene

This gene is overexpressed in Artery - Tibial (x4.2).

Protein differential expression in normal tissues from HIPED for ACKR3 Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for ACKR3 Gene



Protein tissue co-expression partners for ACKR3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ACKR3 Gene:

ACKR3

mRNA Expression by UniProt/SwissProt for ACKR3 Gene:

P25106-ACKR3_HUMAN
Tissue specificity: Expressed in monocytes, basophils, B-cells, umbilical vein endothelial cells (HUVEC) and B-lymphoblastoid cells. Lower expression detected in CD4+ T-lymphocytes and natural killer cells. In the brain, detected in endothelial cells and capillaries, and in mature neurons of the frontal cortex and hippocampus. Expressed in tubular formation in the kidney. Highly expressed in astroglial tumor endothelial, microglial and glioma cells. Expressed at low levels in normal CD34+ progenitor cells, but at very high levels in several myeloid malignant cell lines. Expressed in breast carcinomas but not in normal breast tissue (at protein level).

Evidence on tissue expression from TISSUES for ACKR3 Gene

  • Nervous system(2.9)
  • Heart(2.2)
genes like me logo Genes that share expression patterns with ACKR3: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for ACKR3 Gene

Orthologs for ACKR3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ACKR3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CXCR7 33 34
  • 99.26 (n)
dog
(Canis familiaris)
Mammalia CXCR7 34
  • 93 (a)
OneToOne
ACKR3 33
  • 90.52 (n)
rat
(Rattus norvegicus)
Mammalia Cxcr7 33
  • 89.13 (n)
cow
(Bos Taurus)
Mammalia CXCR7 33 34
  • 88.95 (n)
mouse
(Mus musculus)
Mammalia Ackr3 33 16 34
  • 88.67 (n)
oppossum
(Monodelphis domestica)
Mammalia ACKR3 34
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ACKR3 34
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves CXCR7 33 34
  • 74.76 (n)
lizard
(Anolis carolinensis)
Reptilia ACKR3 34
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ackr3 33
  • 65.54 (n)
African clawed frog
(Xenopus laevis)
Amphibia RDC1 33
zebrafish
(Danio rerio)
Actinopterygii ackr3b 33 34
  • 66.36 (n)
ACKR3 (2 of 2) 34
  • 47 (a)
OneToMany
sbcb900 33
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 24 (a)
OneToMany
Species where no ortholog for ACKR3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ACKR3 Gene

ENSEMBL:
Gene Tree for ACKR3 (if available)
TreeFam:
Gene Tree for ACKR3 (if available)

Paralogs for ACKR3 Gene

Paralogs for ACKR3 Gene

genes like me logo Genes that share paralogs with ACKR3: view

Variants for ACKR3 Gene

Sequence variations from dbSNP and Humsavar for ACKR3 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000003998 -- 236,575,003(+) A/G intron_variant
rs1000097995 -- 236,543,654(+) A/G genic_upstream_transcript_variant, intron_variant
rs1000104140 -- 236,547,585(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000258195 -- 236,580,389(+) A/T intron_variant
rs1000266710 -- 236,563,635(+) ATTAATTA/ATTA genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ACKR3 Gene

Variant ID Type Subtype PubMed ID
nsv1000252 CNV loss 25217958
nsv1005677 CNV gain 25217958
nsv524571 CNV loss 19592680
nsv528791 CNV loss 19592680
nsv834576 CNV gain 17160897
nsv997438 CNV gain 25217958

Variation tolerance for ACKR3 Gene

Residual Variation Intolerance Score: 63.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.79; 33.75% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ACKR3 Gene

Human Gene Mutation Database (HGMD)
ACKR3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
ACKR3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ACKR3 Gene

Disorders for ACKR3 Gene

MalaCards: The human disease database

(3) MalaCards diseases for ACKR3 Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
lymphoplasmacytic lymphoma
  • waldenstrom macroglobulinemia
whim syndrome
  • whims
glioma
- elite association - COSMIC cancer census association via MalaCards
Search ACKR3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for ACKR3

genes like me logo Genes that share disorders with ACKR3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ACKR3 Gene

Publications for ACKR3 Gene

  1. The chemokine SDF-1/CXCL12 binds to and signals through the orphan receptor RDC1 in T lymphocytes. (PMID: 16107333) Balabanian K … Bachelerie F (The Journal of biological chemistry 2005) 2 3 4 22 58
  2. Expression and regulation of the orphan receptor RDC1 and its putative ligand in human dendritic and B cells. (PMID: 16455976) Infantino S … Thelen M (Journal of immunology (Baltimore, Md. : 1950) 2006) 3 4 22 58
  3. Carboxy-terminus of CXCR7 regulates receptor localization and function. (PMID: 22300987) Ray P … Luker GD (The international journal of biochemistry & cell biology 2012) 3 4 58
  4. Ubiquitination of CXCR7 controls receptor trafficking. (PMID: 22457824) Canals M … Leurs R (PloS one 2012) 3 4 58
  5. CXCR7 protein expression in human adult brain and differentiated neurons. (PMID: 21655198) Shimizu S … Meucci O (PloS one 2011) 3 4 58

Products for ACKR3 Gene

  • Addgene plasmids for ACKR3

Sources for ACKR3 Gene

Content
Loading form....