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SIGLEC1 sialic acid binding Ig like lectin 1 [ Homo sapiens (human) ]

Gene ID: 6614, updated on 13-Feb-2019

Summary

Official Symbol
SIGLEC1provided by HGNC
Official Full Name
sialic acid binding Ig like lectin 1provided by HGNC
Primary source
HGNC:HGNC:11127
See related
Ensembl:ENSG00000088827 MIM:600751
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
SN; CD169; SIGLEC-1
Summary
This gene encodes a member of the immunoglobulin superfamily. The encoded protein is a lectin-like adhesion molecule that binds glycoconjugate ligands on cell surfaces in a sialic acid-dependent manner. It is a type I transmembrane protein expressed only by a subpopulation of macrophages and is involved in mediating cell-cell interactions. Alternative splicing produces a transcript variant encoding an isoform that is soluble rather than membrane-bound; however, the full-length nature of this variant has not been determined. [provided by RefSeq, Jul 2008]
Expression
Broad expression in placenta (RPKM 8.2), spleen (RPKM 6.4) and 20 other tissues See more
Orthologs

Genomic context

See SIGLEC1 in Genome Data Viewer
Location:
20p13
Exon count:
23
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 20 NC_000020.11 (3686970..3712558, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (3667617..3693213, complement)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene GDNF family receptor alpha 4 Neighboring gene ADAM metallopeptidase domain 33 Neighboring gene heat shock protein family A (Hsp70) member 12B Neighboring gene chromosome 20 open reading frame 27

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?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 entry and replication require functional SIGLEC1 in monocyte derived macrophages; antibodies against SIGLEC1 inhibit replication PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env (gp120) V1/V2 loops bind to SIGLEC1 to enter monocyte derived macrophages PubMed
env Interferon-alpha- and interferon-gamma-induced sialoadhesin-expressing monocytes adsorb HIV-1 through interaction with the sialic acid residues on the viral envelope glycoprotein gp120 PubMed
Pr55(Gag) gag Co-localization of HIV-1 Gag virus-like particles in THP-1/CD169YF cells is reduced within CD81+ compartments, but enhanced within CD63+ or LAMP1+ compartments PubMed
gag HIV-1 Gag co-localizes with Siglec-1 in the sac-like compartment PubMed
capsid gag IFN-gamma-activated dendritic cells, monocytes, and macrophages have an enhanced ability to capture and trans-infect HIV-1 via Siglec-1 recognition of viral membrane gangliosides in terms of detected levels of p24 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Adaptive Immune System, organism-specific biosystem (from REACTOME)
    Adaptive Immune System, organism-specific biosystemAdaptive immunity refers to antigen-specific immune response efficiently involved in clearing the pathogens. The adaptive immune system is comprised of B and T lymphocytes that express receptors with...
  • Cell adhesion molecules (CAMs), organism-specific biosystem (from KEGG)
    Cell adhesion molecules (CAMs), organism-specific biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
  • Cell adhesion molecules (CAMs), conserved biosystem (from KEGG)
    Cell adhesion molecules (CAMs), conserved biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
  • Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystem (from REACTOME)
    Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystemA number of receptors and cell adhesion molecules play a key role in modifying the response of cells of lymphoid origin (such as B-, T- and NK cells) to self and tumor antigens, as well as to pathoge...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ00051, FLJ00055, FLJ00073, FLJ00411, FLJ32150, DKFZp667F058

Gene Ontology Provided by GOA

Function Evidence Code Pubs
carbohydrate binding NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
cell-cell adhesion NAS
Non-traceable Author Statement
more info
PubMed 
cell-matrix adhesion NAS
Non-traceable Author Statement
more info
PubMed 
endocytosis IEA
Inferred from Electronic Annotation
more info
 
inflammatory response NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
extracellular region IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane NAS
Non-traceable Author Statement
more info
PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
sialoadhesin
Names
sialic acid binding Ig-like lectin 1, sialoadhesin
sialic acid-binding immunoglobulin-like lectin 1

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_001367089.1NP_001354018.1  sialoadhesin isoform 2 precursor

    Status: REVIEWED

    Source sequence(s)
    AL109804
    Conserved Domains (8) summary
    smart00409
    Location:431503
    IG; Immunoglobulin
    smart00410
    Location:715792
    IG_like; Immunoglobulin like
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:514594
    Ig_2; Immunoglobulin domain
    pfam13927
    Location:242309
    Ig_3; Immunoglobulin domain
    cd00096
    Location:15521627
    Ig; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
    cl28434
    Location:898980
    I-set; Immunoglobulin I-set domain
  2. NM_023068.4NP_075556.1  sialoadhesin isoform 1 precursor

    See identical proteins and their annotated locations for NP_075556.1

    Status: REVIEWED

    Source sequence(s)
    AF230073, AK024462, AL109804, AY927519, CD365566
    Consensus CDS
    CCDS13060.1
    UniProtKB/Swiss-Prot
    Q9BZZ2
    Related
    ENSP00000341141.4, ENST00000344754.5
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin 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_000020.11 Reference GRCh38.p12 Primary Assembly

    Range
    3686970..3712558 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011529325.2XP_011527627.1  sialoadhesin isoform X1

    UniProtKB/Swiss-Prot
    Q9BZZ2
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
  2. XM_011529326.2XP_011527628.1  sialoadhesin isoform X1

    See identical proteins and their annotated locations for XP_011527628.1

    UniProtKB/Swiss-Prot
    Q9BZZ2
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
  3. XM_011529324.2XP_011527626.1  sialoadhesin isoform X1

    See identical proteins and their annotated locations for XP_011527626.1

    UniProtKB/Swiss-Prot
    Q9BZZ2
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
  4. XM_006723610.3XP_006723673.1  sialoadhesin isoform X1

    See identical proteins and their annotated locations for XP_006723673.1

    UniProtKB/Swiss-Prot
    Q9BZZ2
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
  5. XM_011529328.3XP_011527630.1  sialoadhesin isoform X1

    See identical proteins and their annotated locations for XP_011527630.1

    UniProtKB/Swiss-Prot
    Q9BZZ2
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
  6. XM_011529327.2XP_011527629.1  sialoadhesin isoform X1

    See identical proteins and their annotated locations for XP_011527629.1

    UniProtKB/Swiss-Prot
    Q9BZZ2
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
  7. XM_011529331.1XP_011527633.1  sialoadhesin isoform X4

    Conserved Domains (7) summary
    cd00096
    Location:341414
    Ig; Immunoglobulin domain
    smart00409
    Location:427505
    IG; Immunoglobulin
    smart00410
    Location:158234
    IG_like; Immunoglobulin like
    pfam07679
    Location:809891
    I-set; Immunoglobulin I-set domain
    pfam08205
    Location:53139
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:156234
    Ig_2; Immunoglobulin domain
    cl11960
    Location:147
    Ig; Immunoglobulin domain
  8. XM_011529330.1XP_011527632.1  sialoadhesin isoform X3

    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:338408
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:812894
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:629702
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
  9. XM_011529329.1XP_011527631.1  sialoadhesin isoform X2

    UniProtKB/Swiss-Prot
    Q9BZZ2
    Conserved Domains (8) summary
    smart00409
    Location:431503
    IG; Immunoglobulin
    smart00410
    Location:715792
    IG_like; Immunoglobulin like
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:514594
    Ig_2; Immunoglobulin domain
    pfam13927
    Location:242309
    Ig_3; Immunoglobulin domain
    cd00096
    Location:15521627
    Ig; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
    cl28434
    Location:898980
    I-set; Immunoglobulin I-set domain
  10. XM_011529333.2XP_011527635.1  sialoadhesin isoform X5

    Conserved Domains (7) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:431503
    IG; Immunoglobulin
    smart00410
    Location:247317
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
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