CLEC4G C-type lectin domain family 4 member G [Homo sapiens (human)] - Gene

Summary

Official Symbol: CLEC4Gprovided by HGNC
Official Full Name: C-type lectin domain family 4 member Gprovided by HGNC
Primary source: HGNC:HGNC:24591
See related: Ensembl:ENSG00000182566 MIM:616256; AllianceGenome:HGNC:24591
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: LP2698; UNQ431; DTTR431; LSECtin
Summary: This gene encodes a glycan-binding receptor and member of the C-type lectin family which plays a role in the immune response. C-type lectin receptors are pattern recognition receptors located on immune cells that play a role in the recognition and uptake of both self and non-self glycoproteins as well as mediating cell adhesion, glycoprotein clearance, and cell signaling functions. This gene's protein binds complex-type N-glycans of the viral envelope proteins of Ebola virus, West Nile filovirus, and SARS coronavirus, but not HIV or hepatitis C virus. In mouse, this protein has been shown to recognize activated T-cells and to negatively regulate T-cell receptor-mediated signalling. It also acts as a novel, liver-specific regulator of NK cell-mediated immunity in mouse. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2020]
Annotation information: Note: This gene has been reviewed for its involvement in coronavirus biology, and is involved in SARS-CoV-2 infection.
Expression: Biased expression in liver (RPKM 17.2), lymph node (RPKM 6.5) and 4 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 19p13.2

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (7728957..7732110, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (7729985..7733138, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (7793843..7796996, complement)

Chromosome 19 - NC_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

C-type Lectin Domain Family 4 Member G (CLEC4G) Is a Negative Marker for CD34 in the Evolution of Liver Pathogenesis.
Title: C-type Lectin Domain Family 4 Member G (CLEC4G) Is a Negative Marker for CD34 in the Evolution of Liver Pathogenesis.
Macrophage-specific ablation of LSECtin in breast cancer cells decreased cancer stem cell frequency and tumor growth. Disruption of the LSECtin-BTN3A3 axis with BTN3A3-Fc or anti-BTN3A3 monoclonal antibodies has a therapeutic effect on breast cancer.
Title: LSECtin on tumor-associated macrophages enhances breast cancer stemness via interaction with its receptor BTN3A3.
Japanese encephalitis virus infected cells through three virus receptors: DC-SIGN, DC-SIGNR and LSECtin.
Title: Distinct usage of three C-type lectins by Japanese encephalitis virus: DC-SIGN, DC-SIGNR, and LSECtin.
The results indicate that LSECtin plays an important role in colorectal carcinoma liver metastasis and may be a promising new target for intervention in metastasis formation.
Title: Novel roles of liver sinusoidal endothelial cell lectin in colon carcinoma cell adhesion, migration and in-vivo metastasis to the liver.
The mobility of LSECtin-carbohydrate recognition domain increased after addition of Ca(2+) and N-acetylglucosamine.
Title: Mobility study of individual residue sites in the carbohydrate recognition domain of LSECtin using SDSL-EPR technique.
Axl,Tyro3,DC-SIGN and LSECtin are identified as new virus receptors for Lassa virus cell entry.
Title: Identification of cell surface molecules involved in dystroglycan-independent Lassa virus cell entry.
The human LSECtin have been shown to bind Ebola virus glycoprotein with equivalent affinities, and the GlcNAcbeta1-2Man disaccharide has been demonstrated to be an effective inhibitor of this interaction.
Title: Mouse LSECtin as a model for a human Ebola virus receptor.
The interaction between CD44 & LSECtin is dependent on protein-glycan recognition. CD44 is the 1st identified endogenous ligand of LSECtin, & similarly, LSECtin is a novel ligand of CD44.
Title: The DC-SIGN family member LSECtin is a novel ligand of CD44 on activated T cells.
Liver sinusoidal endothelial cell lectin, LSECtin, negatively regulates hepatic T-cell immune response.
Title: Liver sinusoidal endothelial cell lectin, LSECtin, negatively regulates hepatic T-cell immune response.
LSECtin is expressed by liver myeloid cells, and its expression is dependent on the PU.1 transcription factor.
Title: The pathogen receptor liver and lymph node sinusoidal endotelial cell C-type lectin is expressed in human Kupffer cells and regulated by PU.1.

Submit: New GeneRIF Correction See all GeneRIFs (14)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Envelope surface glycoprotein gp120	env	LSECtin binds to soluble human immunodeficiency virus type-1 (HIV-1) GP120	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables carbohydrate binding	IBA Inferred from Biological aspect of Ancestor more info
enables carbohydrate derivative binding	IDA Inferred from Direct Assay more info	PubMed
enables fructose binding	IDA Inferred from Direct Assay more info	PubMed
enables glycosylated region protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables mannose binding	IDA Inferred from Direct Assay more info	PubMed
enables polysaccharide binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables virus coreceptor activity	IGI Inferred from Genetic Interaction more info	PubMed
enables virus receptor activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in T cell mediated immunity	IEA Inferred from Electronic Annotation more info
involved_in alpha-beta T cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in biological process involved in interspecies interaction between organisms	IBA Inferred from Biological aspect of Ancestor more info
involved_in immature T cell proliferation in thymus	IEA Inferred from Electronic Annotation more info
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of T cell mediated immunity	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of alpha-beta T cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of immature T cell proliferation in thymus	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of viral life cycle	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in symbiont entry into host cell	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: C-type lectin domain family 4 member G

Names: C-type lectin superfamily 4, member G; liver and lymph node sinusoidal endothelial cell C-type lectin

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.

Genomic

NG_030321.1 RefSeqGene

Range

5062..8215

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001244856.2 → NP_001231785.1 C-type lectin domain family 4 member G isoform 2

See identical proteins and their annotated locations for NP_001231785.1

Status: REVIEWED

Source sequence(s)

AC008763

UniProtKB/TrEMBL

A0A7I2V4U5, B7ZKQ2

Conserved Domains (1) summary

cl02432
Location:153 → 277

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
NM_198492.4 → NP_940894.1 C-type lectin domain family 4 member G isoform 1

See identical proteins and their annotated locations for NP_940894.1

Status: REVIEWED

Source sequence(s)

AC008763

Consensus CDS

CCDS12185.1

UniProtKB/Swiss-Prot

Q6UXB4

UniProtKB/TrEMBL

A0A7I2V4U5, Q08G24

Related

ENSP00000327599.4, ENST00000328853.11

Conserved Domains (1) summary

cl02432
Location:165 → 289

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain