ACKR3 (atypical chemokine receptor 3)

2004-11-01   Karin Broberg 

Molecular biologist, Dep. of Occupational, Environmental Medicine, Lund University Hospital, SE-221 85 Lund, Sweden

Identity

HGNC
LOCATION
2q37.3
LOCUSID
ALIAS
CMKOR1,CXC-R7,CXCR-7,CXCR7,GPR159,RDC-1,RDC1
FUSION GENES

DNA/RNA

Description

The genomic size has been estimated to approximately 12.5-13.5 kb. RDC1 has previously been reported to contain only one exon of 1,09 kbp. However, the finding of a RDC1 transcript corresponding to four different regions with exon/intron boundaries in the BAC 514f21 suggests a more complex gene structure. The predicted amino acid sequence of exon 3 and 4 does not show any homology to the protein databases and, since they both contribute with stop codons, it could be questioned whether these sequences represent exons, or are part of an alternatively spliced 3 untranslated region of the gene.

Pseudogene

None

Proteins

Description

362 amino acids; 41522 Da

Expression

RDC1 is expressed in embryological, juvenile as well as adult tissues. Expression has been reported in e.g. bladder, spleen, heart, skeletal muscle, peripheral nervous system and placenta.

Localisation

Integral membrane protein

Function

Orphan receptor, but its endogenous ligand has not yet been identified. The protein is also a coreceptor for human immunodeficiency viruses (HIV). RDC1 belongs to a family of G-protein coupled receptors, which includes hormone, neurotransmitter and light receptors, all of which transduce extracellular signals through interaction with guanine nucleotide (G) binding proteins.

Homology

RDC1 displays homology to other members of the large family of G-protein coupled receptors.

Mutations

Germinal

Single nucleotide polymorphisms

Somatic

Translocations involving RDC1 and HMGA2 has been reported in three lipomas (see below).

Implicated in

Entity name
Lipoma,
Disease
Benign adipocyte tumor
Prognosis
Good
Cytogenetics
Translocations involving 2q35-37 and 12q13-15 have been reported in six lipomas
Hybrid gene
Fusion between RDC1 and HMGA2 has been reported in three lipomas with rearrangement involving 2q35-37 and 12q13-15. The breakpoint occurred after the third exon of HMGA2, the most common breakpoint of this gene, and in a previously unknown 3 part of the RDC1 gene. The RDC1 part of the fusion was over 300 bp.
Fusion protein
The functional impact of this fusion is most likely a truncation of HMGA2, since the RDC1 part contributes with a stop codon one amino acid downstream of the breakpoint.
Oncogenesis
Not yet established
Entity name
Tenosynovial giant cell tumours
Disease
Benign tumor of synovium and tendon sheath
Prognosis
Good
Cytogenetics
Translocations involving 1p11-13 and 2q35-37 have been reported in eight cases of tenosynovial giant cell tumours.
Hybrid gene
Four out of seven cases of tenosynovial giant cell tumours with aberrations of 2q35-37 had breakpoints in a BAC probe 260J21 (BACPAC, Oakland), which contains the RDC1 gene.

Bibliography

Pubmed IDLast YearTitleAuthors
121183282002Fusion of RDC1 with HMGA2 in lipomas as the result of chromosome aberrations involving 2q35-37 and 12q13-15.Broberg K et al
152772332004Vascular gene expression in nonneoplastic and malignant brain.Madden SL et al
13154611992RDC1 may not be VIP receptor.Nagata S et al
124476782002Molecular cytogenetic mapping of recurrent chromosomal breakpoints in tenosynovial giant cell tumors.Nilsson M et al
106237232000A putative G protein-coupled receptor, RDC1, is a novel coreceptor for human and simian immunodeficiency viruses.Shimizu N et al
16757911991Cloning and expression of the human vasoactive intestinal peptide receptor.Sreedharan SP et al

Other Information

Locus ID:

NCBI: 57007
MIM: 610376
HGNC: 23692
Ensembl: ENSG00000144476

Variants:

dbSNP: 57007
ClinVar: 57007
TCGA: ENSG00000144476
COSMIC: ACKR3

RNA/Proteins

Gene IDTranscript IDUniprot
ENSG00000144476ENST00000272928P25106
ENSG00000144476ENST00000447924A0A140T9K6

Expression (GTEx)

0
50
100
150
200

Pathways

PathwaySourceExternal ID
Cytokine-cytokine receptor interactionKEGGko04060
Cytokine-cytokine receptor interactionKEGGhsa04060
Signal TransductionREACTOMER-HSA-162582
Signaling by GPCRREACTOMER-HSA-372790
GPCR ligand bindingREACTOMER-HSA-500792
Class A/1 (Rhodopsin-like receptors)REACTOMER-HSA-373076
Peptide ligand-binding receptorsREACTOMER-HSA-375276
Chemokine receptors bind chemokinesREACTOMER-HSA-380108
GPCR downstream signalingREACTOMER-HSA-388396
G alpha (i) signalling eventsREACTOMER-HSA-418594

Protein levels (Protein atlas)

Not detected
Low
Medium
High

References

Pubmed IDYearTitleCitations
169401672006A novel chemokine receptor for SDF-1 and I-TAC involved in cell survival, cell adhesion, and tumor development.438
161073332005The chemokine SDF-1/CXCL12 binds to and signals through the orphan receptor RDC1 in T lymphocytes.334
178981812007CXCR7 (RDC1) promotes breast and lung tumor growth in vivo and is expressed on tumor-associated vasculature.212
200186512010Beta-arrestin- but not G protein-mediated signaling by the "decoy" receptor CXCR7.190
180570032008The role of CXCR7/RDC1 as a chemokine receptor for CXCL12/SDF-1 in prostate cancer.185
213499982011CXCL12 (SDF1alpha)-CXCR4/CXCR7 pathway inhibition: an emerging sensitizer for anticancer therapies?156
201617932010CXCR7 functions as a scavenger for CXCL12 and CXCL11.146
217300652011CXCR7/CXCR4 heterodimer constitutively recruits beta-arrestin to enhance cell migration.119
196411362009Elucidation of CXCR7-mediated signaling events and inhibition of CXCR4-mediated tumor cell transendothelial migration by CXCR7 ligands.115
203888032010The chemokine receptor CXCR7 is highly expressed in human glioma cells and mediates antiapoptotic effects.102

Citation

Karin Broberg

ACKR3 (atypical chemokine receptor 3)

Atlas Genet Cytogenet Oncol Haematol. 2004-11-01

Online version: http://atlasgeneticsoncology.org/gene/40108/ackr3-(atypical-chemokine-receptor-3)