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CCL3L1 C-C motif chemokine ligand 3 like 1 [ Homo sapiens (human) ]

Gene ID: 6349, updated on 22-Sep-2022

Summary

Official Symbol
CCL3L1provided by HGNC
Official Full Name
C-C motif chemokine ligand 3 like 1provided by HGNC
Primary source
HGNC:HGNC:10628
See related
MIM:601395; AllianceGenome:HGNC:10628
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LD78; 464.2; MIP1AP; SCYA3L; G0S19-2; SCYA3L1; D17S1718; LD78BETA; LD78-beta(1-70)
Summary
This gene is one of several cytokine genes that are clustered on the q-arm of chromosome 17. Cytokines are a family of secreted proteins that function in inflammatory and immunoregulatory processes. The protein encoded by this gene binds to several chemokine receptors, including chemokine binding protein 2 and chemokine (C-C motif) receptor 5 (CCR5). CCR5 is a co-receptor for HIV, and binding of this protein to CCR5 inhibits HIV entry. The copy number of this gene varies among individuals, where most individuals have one to six copies, and a minority of individuals have zero or more than six copies. There are conflicting reports about copy number variation of this gene and its correlation to disease susceptibility. This record represents one of two copies that are present on the ALT_REF_LOCI_2 alternate haplotype of the GRCh38 human reference genome assembly. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Apr 2014]
Annotation information
Annotation category: only annotated on alternate loci in reference assembly
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Genomic context

See CCL3L1 in Genome Data Viewer
Location:
17q21.1
Exon count:
3
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 17 (ALT_REF_LOCI_2) NT_187661.1 (250577..252466, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (37368267..37370156, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (34623842..34625731, complement)

NT_187661.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124905374 Neighboring gene C-C motif chemokine ligand 3 pseudogene 1 Neighboring gene C-C motif chemokine ligand 4 like 1 Neighboring gene uncharacterized LOC124900635

Genomic regions, transcripts, and products

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120-induced neuron death is inhibited by CCL3L1 treatment via the phosphorylation of CREB, the upregulation of Bcl-2, and the PKA and CaMKI/CaMKIV cell signaling pathways PubMed
Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 upregulates the expression of chemokine (C-C motif) ligand 3-like 1 (CCL3L1) in peptide-treated PBMCs PubMed
Nef nef HIV-1 Nef-stimulated CD8+ T cells upregulate mRNAs expression for IFN-gamma, MIP-1alpha, MIP-1alphaP, MIP-1beta, TNFRSF9, XCL1, and GM-CSF compared to unstimulated cells PubMed
capsid gag HIV-1 CA-stimulated CD8+ T cells upregulate mRNAs expression for IFN-gamma, MIP-1alpha, MIP-1alphaP, MIP-1beta, TNFRSF9, XCL1, and GM-CSF compared to unstimulated cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC12815, MGC104178, MGC182017

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables CCR chemokine receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables chemokine activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in G protein-coupled receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cellular response to interleukin-1 IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cellular response to tumor necrosis factor IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cellular response to type II interferon IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in chemokine-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in inflammatory response TAS
Traceable Author Statement
more info
PubMed 
involved_in lymphocyte chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in monocyte chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of cell population proliferation TAS
Traceable Author Statement
more info
PubMed 
involved_in neutrophil chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of ERK1 and ERK2 cascade IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of GTPase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in extracellular region TAS
Traceable Author Statement
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
C-C motif chemokine 3-like 1
Names
G0/G1 switch regulatory protein 19-2
chemokine (C-C motif) ligand 3-like 1
small inducible cytokine A3-like 1
tonsillar lymphocyte LD78 beta protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_023369.1 RefSeqGene

    Range
    5000..6889
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_021006.5NP_066286.1  C-C motif chemokine 3-like 1 precursor

    See identical proteins and their annotated locations for NP_066286.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript but encodes the supported protein.
    Source sequence(s)
    BC027888, BC107710
    UniProtKB/Swiss-Prot
    P16619, Q96I68
    Conserved Domains (1) summary
    smart00199
    Location:3189
    SCY; Intercrine alpha family (small cytokine C-X-C) (chemokine CXC)

RNA

  1. NR_111964.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in its 5' terminal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC027888, BC107710, X52149

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 ALT_REF_LOCI_2

Genomic

  1. NT_187661.1 Reference GRCh38.p14 ALT_REF_LOCI_2

    Range
    250577..252466 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    37368267..37370156 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)