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    CD180 CD180 molecule [ Homo sapiens (human) ]

    Gene ID: 4064, updated on 7-Dec-2018

    Summary

    Official Symbol
    CD180provided by HGNC
    Official Full Name
    CD180 moleculeprovided by HGNC
    Primary source
    HGNC:HGNC:6726
    See related
    Ensembl:ENSG00000134061 MIM:602226
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    LY64; Ly78; RP105
    Summary
    CD180 is a cell surface molecule consisting of extracellular leucine-rich repeats (LRR) and a short cytoplasmic tail. The extracellular LRR is associated with a molecule called MD-1 and form the cell surface receptor complex, RP105/MD-1. It belongs to the family of pathogen receptors, Toll-like receptors (TLR). RP105/MD1, by working in concert with TLR4, controls B cell recognition and signaling of lipopolysaccharide (LPS), a membrane constituent of Gram-negative bacteria. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in lymph node (RPKM 23.1), spleen (RPKM 12.8) and 10 other tissues See more
    Orthologs

    Genomic context

    See CD180 in Genome Data Viewer
    Location:
    5q12.3
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 5 NC_000005.10 (67182275..67196789, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (66477205..66492617, complement)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene peptidylprolyl isomerase A pseudogene 78 Neighboring gene microtubule associated serine/threonine kinase family member 4 Neighboring gene MAST4 antisense RNA 1 Neighboring gene uncharacterized LOC101928819 Neighboring gene ribosomal protein L21 pseudogene 55

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Phenotypes

    NHGRI GWAS Catalog

    Description
    A genome-wide search for loci interacting with known prostate cancer risk-associated genetic variants.
    NHGRI GWA Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat Microarray analysis indicates HIV-1 Tat downregulates the expression of many proteins, including RP105, in immature dendritic cells, an effect that likely facilitates the expansion of HIV-1 infection PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC126233, MGC126234

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    B cell proliferation involved in immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cellular response to lipopolysaccharide IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of lipopolysaccharide-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of lipopolysaccharide-mediated signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    CD180 antigen
    Names
    lymphocyte antigen 64
    lymphocyte antigen-64, radioprotective, 105kDa
    radioprotective 105 kDa protein

    NCBI Reference Sequences (RefSeq)

    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.

    mRNA and Protein(s)

    1. NM_005582.3NP_005573.2  CD180 antigen precursor

      See identical proteins and their annotated locations for NP_005573.2

      Status: VALIDATED

      Source sequence(s)
      AC026445, AL544501, AL570708, AW512119, BC109069, BP344300
      Consensus CDS
      CCDS3992.1
      UniProtKB/Swiss-Prot
      Q99467
      Related
      ENSP00000256447.4, ENST00000256447.5
      Conserved Domains (4) summary
      cd00116
      Location:327541
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:276299
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:497555
      LRR_8; Leucine rich repeat
      cl15307
      Location:577626
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p12 Primary Assembly

      Range
      67182275..67196789 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005248504.4XP_005248561.1  CD180 antigen isoform X1

      Conserved Domains (4) summary
      cd00116
      Location:314528
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:263286
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:484542
      LRR_8; Leucine rich repeat
      cl15307
      Location:564613
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
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