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CCL3L3 Gene

protein-coding   GIFtS: 45
GCID: GC17M034523

Chemokine (C-C Motif) Ligand 3-Like 3

  Search for CCL3L3
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Chemokine (C-C Motif) Ligand 3-Like 31 2     464.22
Tonsillar Lymphocyte LD78 Beta Protein2 3     LD782
D17S17182 3     LD78BETA2
G0S19-22 3     SCYA3L2
LD78-beta(1-70)2 3     C-C Motif Chemokine 3-Like 12
SCYA3L12 3     Chemokine (C-C Motif) Ligand 3-Like, Centromeric2
G0/G1 Switch Regulatory Protein 19-22 3     Small Inducible Cytokine A3-Like 12
PAT 464.22 3     Small-Inducible Cytokine A3-Like 13

External Ids:    HGNC: 305541   Entrez Gene: 4140622   Ensembl: ENSG000002565157   OMIM: 6094685   UniProtKB: P166193   

Export aliases for CCL3L3 gene to outside databases

Previous GC identifer: GC17M031547


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CCL3L3 Gene:
This gene is one of several cytokine genes clustered on the q-arm of chromosome 17. Cytokines are a family of
secreted proteins involved in immunoregulatory and inflammatory processes. This protein 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; most individuals have 1-6 copies in the diploid genome, although rare individuals have zero or
more than six copies. The human genome reference assembly contains two full copies of the gene (CCL3L3 and
CCL3L1) and a partial pseudogene. This record represents the more centromeric full-length gene. (provided by
RefSeq, Apr 2010)

GeneCards Summary for CCL3L3 Gene:
CCL3L3 (chemokine (C-C motif) ligand 3-like 3) is a protein-coding gene. GO annotations related to this gene include chemokine activity. An important paralog of this gene is CCL15.

UniProtKB/Swiss-Prot: CL3L1_HUMAN, P16619
Function: Chemotactic for lymphocytes and monocytes. Is a ligand for CCR1, CCR3 and CCR5. Is an inhibitor of
HIV-1-infection. The processed form LD78-beta(3-70) shows a 20-fold to 30-fold higher chemotactic activity and is
a very potent inhibitor of HIV-1-infection. LD78-beta(3-70) is also a ligand for CCR1, CCR3 and CCR5




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000017.10  NC_018928.2  NT_010783.16  NT_187614.1  NT_187661.1  
Regulatory elements:
   Regulatory transcription factor binding sites in the CCL3L3 gene promoter:
         Pbx1a   AP-1   CUTL1   Ik-3   LCR-F1   MEF-2A   HSF2   c-Myb   aMEF-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CCL3L3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CCL3L3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 17q21.1   Ensembl cytogenetic band:  17q12   HGNC cytogenetic band: 17q21.1

CCL3L3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCL3L3 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M034523:  view genomic region     (about GC identifiers)

Start:
34,522,268 bp from pter      End:
34,524,157 bp from pter
Size:
1,890 bases      Orientation:
minus strand

1 alternative location:
Chr17-,NW_003315949 79,625-81,504     

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: CL3L1_HUMAN, P16619 (See protein sequence)
Recommended Name: C-C motif chemokine 3-like 1 precursor  
Size: 93 amino acids; 10161 Da
Secondary accessions: A6NGK6 B2RUX4 Q3B7A8 Q53YA5 Q96I68

Explore the universe of human proteins at neXtProt for CCL3L3: NX_P16619

Post-translational modifications: 

  • The N-terminal processed forms LD78-beta(3-70) and LD78-beta(5-70) are produced by proteolytic cleavage after
    secretion from peripheral blood monocytes. The cleavage to yield LD78-beta(3-70) is probably achieved by DPP41
  • Modification sites at neXtProt
  • REFSEQ proteins: NP_001001437.2  
    ENSEMBL proteins: 
     ENSP00000367605   ENSP00000377994  
    Reactome Protein details: P16619

    CCL3L3 Human Recombinant Protein Products:

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    Search eBioscience for ELISAs for CCL3L3 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    CCL: Chemokine ligands

    2 InterPro protein domains:
     IPR000827 Chemokine_CC_CS
     IPR001811 Chemokine_IL8-like_dom

    Graphical View of Domain Structure for InterPro Entry P16619

    ProtoNet protein and cluster: P16619

    1 Blocks protein domain: IPB000827 Small chemokine

    UniProtKB/Swiss-Prot: CL3L1_HUMAN, P16619
    Similarity: Belongs to the intercrine beta (chemokine CC) family


    Find genes that share domains with CCL3L3           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CL3L1_HUMAN, P16619
    Function: Chemotactic for lymphocytes and monocytes. Is a ligand for CCR1, CCR3 and CCR5. Is an inhibitor of
    HIV-1-infection. The processed form LD78-beta(3-70) shows a 20-fold to 30-fold higher chemotactic activity and is
    a very potent inhibitor of HIV-1-infection. LD78-beta(3-70) is also a ligand for CCR1, CCR3 and CCR5

         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008009chemokine activity IEA--
         
    Find genes that share ontologies with CCL3L3           About GenesLikeMe


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CCL3L3
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    miRTarBase miRNAs that target CCL3L3:
    hsa-mir-215-5p (MIRT024635)

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    CL3L1_HUMAN, P16619: Secreted

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space IEA--

    Find genes that share ontologies with CCL3L3           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for CCL3L3 About   (see all 8)  
    See pathways by source

    SuperPathContained pathways About
    1Peptide ligand-binding receptors
    Class A/1 (Rhodopsin-like receptors)0.71
    Peptide ligand-binding receptors0.60
    GPCR ligand binding0.71
    2Signaling by GPCR
    Signaling by GPCR0.90
    Signal Transduction0.58
    3Toll-like receptor signaling pathway
    Toll-like receptor signaling pathway0.94
    Chagas disease (American trypanosomiasis)0.32
    4Chemokine Superfamily: Human/Mouse Ligand-Receptor Interactions
    Chemokine receptors bind chemokines0.81
    5PEDF Induced Signaling
    Cytokine-cytokine receptor interaction0.43


    Find genes that share SuperPaths with CCL3L3           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways



    1 Reactome Pathway for CCL3L3
        Chemokine receptors bind chemokines


    Selected Kegg Pathways  (Kegg details for CCL3L3) (see all 6):
        Cytokine-cytokine receptor interaction
    Chemokine signaling pathway
    Toll-like receptor signaling pathway
    Salmonella infection
    Chagas disease (American trypanosomiasis)

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CCL3L3
    Interactions:

        Search GeneGlobe Interaction Network for CCL3L3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 21)

    Selected Interacting proteins for CCL3L3 (P166193 ENSP000003676054) via UniProtKB, MINT, STRING, and/or I2D (see all 21)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CCR3P516773, ENSP000003500034I2D: score=4 STRING: ENSP00000350003
    CCR5P516813, ENSP000002923034I2D: score=4 STRING: ENSP00000292303
    ACKR2O005903, ENSP000002731454I2D: score=3 STRING: ENSP00000273145
    CCR1P322463, ENSP000002961404I2D: score=3 STRING: ENSP00000296140
    DPP4P274873, ENSP000003537314I2D: score=1 STRING: ENSP00000353731
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006935chemotaxis ----
    GO:0006954inflammatory response TAS1694014
    GO:0006955immune response IEA--
    GO:0008285negative regulation of cell proliferation TAS2271120

    Find genes that share ontologies with CCL3L3           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for CCL3L3 (CL3L1)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CCL3L3 gene: 
    NM_001001437.3  

    Unigene Cluster for CCL3L3:

    Chemokine (C-C motif) ligand 3-like 3
    Hs.454713  [show with all ESTs]
    Unigene Representative Sequence: BU933905
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000588817 ENST00000378354(uc002hle.2 uc002hlf.2) ENST00000589736
    ENST00000394484
    miRNA
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    Additional mRNA sequence: 

    BC007783.2 BC146919.1 BC147008.1 BC147013.1 BT006783.1 

    4 DOTS entries:

    DT.449023  DT.100035793  DT.120948225  DT.95371117 

    10 AceView cDNA sequences:

    BC063472 NM_001001437 BI772489 BC007783 AA908200 BM994018 AI302038 BF662985 
    BG231670 AW953754 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    CCL3L3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCACCAAAGC
    CCL3L3 Expression
    About this image


    CCL3L3 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Blood (Hematopoietic System)
             Natural Killer Cells Peripheral Blood
    CCL3L3 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --

    SOURCE GeneReport for Unigene cluster: Hs.454713
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CCL3L3

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of chordates.

    Orthologs for CCL3L3 gene from Selected species (see all 7)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ccl31 chemokine (C-C motif) ligand 3 78.99(n)
    76.09(a)
      20302  NM_011337.2  NP_035467.1 
    zebrafish
    (Danio rerio)
    Actinopterygii ZGC:1937066
    chemokine CCL-C25y-like (LOC100000034), mRNA
    35(a)
    1 → many
    25(25902180-25904281) ENSDARG00000070378


    ENSEMBL Gene Tree for CCL3L3 (if available)
    TreeFam Gene Tree for CCL3L3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CCL3L3 gene
    CCL152  CCL162  CCL142  CCL4L12  CCL3L12  CCL4L22  CCL262  CCL32  
    CCL52  CCL232  CCL42  CCL182  CCL15-CCL142  
    Selected SIMAP similar genes for CCL3L3 using alignment to 2 protein entries:     CL3L1_HUMAN (see all proteins) (see all similar genes):
    CCL3L1    CCL3    CCL4L2    LOC728835    CCL14    CCL4L1
    CCL18    CCL4    CCL5    CCL16    CCL11    CCL7
    MCP-3    CCL15    CCL2    CCL13    CCL24    CCL26

    Find genes that share paralogs with CCL3L3           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Polymorphic Variants from UniProtKB/Swiss-Prot
    CL3L1_HUMAN, P16619: The copy number of the CCL3L1 gene varies among individuals; most individuals have 1-6 copies in the
    diploid genome, although rare individuals have zero or more than 6 copies


    1 SNPs for CCL3L3    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1469432371,2
    ----34524749(+) AAAAA-/AGAATT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for CCL3L3 (34522268 - 34524157 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for CCL3L3 (see all 29):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2715876CNV Deletion23290073
    nsv820772CNV Deletion20802225
    nsv821611CNV Deletion20802225
    dgv545e199CNV Deletion23128226
    dgv546e199CNV Deletion23128226
    dgv12n31CNV Duplication19718026
    nsv471397CNV Duplication19718026
    nsv436845CNV Insertion17901297
    esv33107CNV Loss17666407
    nsv2040CNV Loss18451855

    Site Specific Mutation Identification with PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 609468    OMIM disorders: --


    Find genes that share disorders with CCL3L3           About GenesLikeMe


    Export disorders for CCL3L3 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for CCL3L3 gene, integrated from 10 sources (see all 19):
    (articles sorted by number of sources associating them with CCL3L3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    2. Structures of human genes coding for cytokine LD78 and their expression. (PubMed id 1694014)1, 2 Nakao M.... Shimada K. (Mol. Cell. Biol. 1990)
    3. Three human homologs of a murine gene encoding an inhibitor of stem cell proliferation. (PubMed id 2271120)1, 2 Blum S.... Forsdyke D.R. (DNA Cell Biol. 1990)
    4. Two inflammatory mediator cytokine genes are closely linked and variably amplified on chromosome 17q. (PubMed id 1972563)1, 2 Irving S.G.... Kelly K. (Nucleic Acids Res. 1990)
    5. CCL3L1 and CCL4L1: variable gene copy number in adolescents with and without human immunodeficiency virus type 1 (HIV-1) infection. (PubMed id 17330138)2 Shao W.... Kaslow R.A. (Genes Immun. 2007)
    6. Proteolysis of macrophage inflammatory protein-1alpha isoforms LD78beta and LD78alpha by neutrophil-derived serine proteases. (PubMed id 15728180)1 Ryu O.H....Hart T.C. (J. Biol. Chem. 2005)
    7. CCL3L1 and CCL4L1 chemokine genes are located in a segmental duplication at chromosome 17q12. (PubMed id 15028295)1 Modi W.S. (Genomics 2004)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    9. Differential recognition and scavenging of native and truncated macrophage-derived chemokine (macrophage-derived chemokine/CC chemokine ligand 22) by the D6 decoy receptor. (PubMed id 15067078)1 Bonecchi R....Mantovani A. (J. Immunol. 2004)
    10. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)2 Zhang Z. and Henzel W.J. (Protein Sci. 2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 414062 HGNC: 30554 AceView: MGC12815 Ensembl:ENSG00000256515 euGenes: HUgn414062
    ECgene: CCL3L3 Kegg: 414062 H-InvDB: CCL3L3

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CCL3L3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CCL3L3 gene:
    Search GeneIP for patents involving CCL3L3

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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