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    SIGLEC5 sialic acid binding Ig like lectin 5 [ Homo sapiens (human) ]

    Gene ID: 8778, updated on 28-Oct-2024

    Summary

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    Official Symbol
    SIGLEC5provided by HGNC
    Official Full Name
    sialic acid binding Ig like lectin 5provided by HGNC
    Primary source
    HGNC:HGNC:10874
    See related
    Ensembl:ENSG00000268500 MIM:604200; AllianceGenome:HGNC:10874
    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
    CD170; OBBP2; CD33L2; OB-BP2; SIGLEC-5
    Summary
    This gene encodes a member of the sialic acid-binding immunoglobulin-like lectin (Siglec) family. These cell surface lectins are characterized by structural motifs in the immunoglobulin (Ig)-like domains and sialic acid recognition sites in the first Ig V set domain. The encoded protein is a member of the CD33-related subset of Siglecs and inhibits the activation of several cell types including monocytes, macrophages and neutrophils. Binding of group B Streptococcus (GBS) to the encoded protein plays a role in GBS immune evasion. [provided by RefSeq, Feb 2012]
    Expression
    Biased expression in bone marrow (RPKM 12.5), spleen (RPKM 10.6) and 12 other tissues See more
    Orthologs
    all
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    Genomic context

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    See SIGLEC5 in Genome Data Viewer
    Location:
    19q13.41
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (51610960..51630401, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (54700546..54719384, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (52114213..52133654, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc finger protein 175 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:52096077-52096712 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:52096713-52097348 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:52097349-52097984 Neighboring gene long intergenic non-protein coding RNA 1530 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15024 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:52098383-52098550 Neighboring gene cytosolic thiouridylase subunit 1 homolog (S. pombe) pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15025 Neighboring gene uncharacterized LOC124904753 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10989 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15026 Neighboring gene ribosomal protein L9 pseudogene 33 Neighboring gene sialic acid binding Ig like lectin 14 Neighboring gene ribosomal protein L7 pseudogene 51

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues 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

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    Related articles in PubMed

    1. Siglec-5 is a novel marker of critical limb ischemia in patients with diabetes. Li JY, et al. Sci Rep, 2017 Sep 12. PMID 28900239, Free PMC Article
    2. Refolded recombinant Siglec5 for NMR investigation of complex carbohydrate binding. Barb AW, et al. Protein Expr Purif, 2013 Apr. PMID 23321067, Free PMC Article
    3. Leukocyte inflammatory responses provoked by pneumococcal sialidase. Chang YC, et al. mBio, 2012. PMID 22215570, Free PMC Article
    4. Human Siglec-5 inhibitory receptor and immunoglobulin A (IgA) have separate binding sites in streptococcal beta protein. Nordström T, et al. J Biol Chem, 2011 Sep 30. PMID 21795693, Free PMC Article
    5. Group B Streptococcus suppression of phagocyte functions by protein-mediated engagement of human Siglec-5. Carlin AF, et al. J Exp Med, 2009 Aug 3. PMID 19596804, Free PMC Article

    See all (52) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The prognostic impact of SIGLEC5-induced impairment of CD8[+] T cell activation in sepsis.
      Title: The prognostic impact of SIGLEC5-induced impairment of CD8(+) T cell activation in sepsis.
    2. PSGL-1: a novel immune checkpoint driving T-cell dysfunction in obstructive sleep apnea.
      Title: PSGL-1: a novel immune checkpoint driving T-cell dysfunction in obstructive sleep apnea.
    3. Case-only design identifies interactions of genetic risk variants at SIGLEC5 and PLG with the lncRNA CTD-2353F22.1 implying the importance of periodontal wound healing for disease aetiology.
      Title: Case-only design identifies interactions of genetic risk variants at SIGLEC5 and PLG with the lncRNA CTD-2353F22.1 implying the importance of periodontal wound healing for disease aetiology.
    4. Siglec-5 and Siglec-14 mediate the endocytosis of ADAMTS13.
      Title: Siglec-5 and Siglec-14 mediate the endocytosis of ADAMTS13.
    5. Siglec-5 is an inhibitory immune checkpoint molecule for human T cells.
      Title: Siglec-5 is an inhibitory immune checkpoint molecule for human T cells.
    6. Periodontitis Risk Variants at SIGLEC5 Impair ERG and MAFB Binding.
      Title: Periodontitis Risk Variants at SIGLEC5 Impair ERG and MAFB Binding.
    7. Genetic susceptibility of common polymorphisms in NIN and SIGLEC5 to chronic periodontitis.
      Title: Genetic susceptibility of common polymorphisms in NIN and SIGLEC5 to chronic periodontitis.
    8. Soluble siglec-5 is a novel salivary biomarker for primary Sjogren's syndrome.
      Title: Soluble siglec-5 is a novel salivary biomarker for primary Sjogren's syndrome.
    9. Plasma Siglec-5 levels are implicated as an early diagnostic marker of CLI in T2DM patients and it may become a target for the prevention or treatment of CLI in diabetes.
      Title: Siglec-5 is a novel marker of critical limb ischemia in patients with diabetes.
    10. PSGL1 and Siglec-5 are in close proximity at the leukocyte surface.SPSGL1 is a ligand for Siglec-5 and interacts with Siglec-5 ectodomain.Siglec-5 plays a role in PSGL1-mediated leukocyte rolling and the inflammatory response in general.
      Title: Soluble Siglec-5 associates to PSGL-1 and displays anti-inflammatory activity.
    Submit: New GeneRIF Correction See all GeneRIFs (26)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Copy number response

    Description
    Copy number response
    Triplosensitivity

    No evidence available (Last evaluated 2021-02-02)

    ClinGen Genome Curation Page
    Haploinsufficency

    Dosage sensitivity unlikely (Last evaluated 2021-02-02)

    ClinGen Genome Curation PagePubMed

    EBI GWAS Catalog

    Description
    Discovery of six new susceptibility loci and analysis of pleiotropic effects in leprosy.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sialic acid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in ficolin-1-rich granule membrane TAS
    Traceable Author Statement
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in secretory granule membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in tertiary granule membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    sialic acid-binding Ig-like lectin 5
    Names
    CD33 antigen-like 2
    OB-binding protein 2
    obesity-binding protein 2
    sialic acid-binding immunoglobulin-like lectin 5

    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.

    mRNA and Protein(s)

    1. NM_001384708.1 → NP_001371637.1  sialic acid-binding Ig-like lectin 5 isoform 2 precursor

      Status: REVIEWED

      Source sequence(s)
      AC018755
      Conserved Domains (4) summary
      cd00096
      Location:254 → 259
      Ig; Ig strand A [structural motif]
      cd05712
      Location:21 → 140
      IgV_CD33; Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic acid-binding Ig-like lectins)
      cd20987
      Location:146 → 231
      IgC2_CD33_d2_like; Second immunoglobulin domain of Cluster of Differentiation (CD) 33 and related Siglecs; member of the C2-set of IgSF domains
      cl11960
      Location:254 → 331
      Ig; Immunoglobulin domain

    2. NM_001384709.1 → NP_001371638.1  sialic acid-binding Ig-like lectin 5 isoform 3 precursor

      Status: REVIEWED

      Source sequence(s)
      AC018755
      Related
      ENSP00000520903.1, ENST00000850616.1
      Conserved Domains (4) summary
      cd00096
      Location:254 → 259
      Ig; Ig strand A [structural motif]
      cd05712
      Location:21 → 140
      IgV_CD33; Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic acid-binding Ig-like lectins)
      cd20987
      Location:146 → 231
      IgC2_CD33_d2_like; Second immunoglobulin domain of Cluster of Differentiation (CD) 33 and related Siglecs; member of the C2-set of IgSF domains
      cl11960
      Location:254 → 331
      Ig; Immunoglobulin domain

    3. NM_003830.4 → NP_003821.1  sialic acid-binding Ig-like lectin 5 isoform 1 precursor

      See identical proteins and their annotated locations for NP_003821.1

      Status: REVIEWED

      Source sequence(s)
      AC018755, U71383
      Consensus CDS
      CCDS33088.1
      UniProtKB/Swiss-Prot
      O15389
      Related
      ENSP00000507738.1, ENST00000683636.1
      Conserved Domains (4) summary
      cd00096
      Location:265 → 321
      Ig; Immunoglobulin domain
      cd05712
      Location:21 → 140
      Ig_Siglec_N; Immunoglobulin (Ig) domain at the N terminus of Siglec (sialic acid-binding Ig-like lectins)
      smart00410
      Location:259 → 331
      IG_like; Immunoglobulin like
      cl11960
      Location:150 → 216
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      51610960..51630401 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      54700546..54719384 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047446915.1 → XP_047302871.1  sialic acid-binding Ig-like lectin 5 isoform X2

    2. XM_047446914.1 → XP_047302870.1  sialic acid-binding Ig-like lectin 5 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O15389.1 GenPept UniProtKB/Swiss-Prot:O15389

    Gene LinkOut

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