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

Gene ID: 8778, updated on 2-Nov-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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