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Protein

C-type lectin domain family 6 member A

Gene

Clec6a

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Binds high-mannose carbohydrates in a Ca2+-dependent manner. Functional receptor for alpha-mannans on C.albicans hypheas. Plays an important role in the host defense against C.albicans infection by inducing TH17 cell differentiation. Recognizes also, in a mannose-dependent manner, allergens from house dust mite and fungi, by promoting cysteinyl leukotriene production. Recognizes soluble elements from the eggs of Shistosoma mansoni altering adaptive immune responses. Transduces signals through an Fc receptor gamma chain /FCER1G and Syk-CARD9-NF-kappa-B-dependent pathway.5 Publications

GO - Molecular functioni

  • carbohydrate binding Source: UniProtKB

GO - Biological processi

  • adaptive immune response Source: UniProtKB-KW
  • defense response to fungus Source: UniProtKB
  • innate immune response Source: UniProtKB
  • positive regulation of cytokine secretion Source: UniProtKB
  • positive regulation of I-kappaB kinase/NF-kappaB signaling Source: UniProtKB
  • stimulatory C-type lectin receptor signaling pathway Source: Reactome

Keywordsi

Biological processAdaptive immunity, Immunity, Innate immunity
LigandLectin

Enzyme and pathway databases

ReactomeiR-MMU-5621480. Dectin-2 family.

Names & Taxonomyi

Protein namesi
Recommended name:
C-type lectin domain family 6 member A
Alternative name(s):
C-type lectin superfamily member 10
Dendritic cell-associated C-type lectin 2
Short name:
DC-associated C-type lectin 2
Short name:
Dectin-2
Gene namesi
Name:Clec6a
Synonyms:Clec4n, Clecsf10, Dectin2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 6

Organism-specific databases

MGIiMGI:1861231. Clec4n.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 20CytoplasmicSequence analysisAdd BLAST20
Transmembranei21 – 43Helical; Signal-anchor for type II membrane proteinSequence analysisAdd BLAST23
Topological domaini44 – 209ExtracellularSequence analysisAdd BLAST166

GO - Cellular componenti

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Disruption phenotypei

Deficient mice are healthy, fertile, with normal lymphoid cells, but show reduced survival after intravenous Candida albicans infection. In deficient mice fungal burden is higher in kidneys of mutant and in response to yeast antigen inflammatory cytokines and Th17 cells are reduced.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi17R → V: Does not affect association with Fc receptor gamma chain. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000466361 – 209C-type lectin domain family 6 member AAdd BLAST209

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi79 ↔ 90PROSITE-ProRule annotation
Disulfide bondi107 ↔ 202PROSITE-ProRule annotation
Glycosylationi131N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi176 ↔ 194PROSITE-ProRule annotation

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ9JKF4.
PRIDEiQ9JKF4.

PTM databases

PhosphoSitePlusiQ9JKF4.

Expressioni

Tissue specificityi

Expressed by the XS52 DC (dendritic cell) line (at protein level). Expressed constitutively by the epidermis, and skin resident DC appear to be the major source of this expression. Expressed in the spleen and thymus. Expression was undetectable in non-DC lines, including macrophage lines (J774 and Raw), T-cell lines (7-17, HDK-1, and D10), B-cell hybridoma (5C5), a keratinocyte line (Pam 212), and a fibroblast line (NS01).1 Publication

Gene expression databases

BgeeiENSMUSG00000023349.
CleanExiMM_CLEC4N.
ExpressionAtlasiQ9JKF4. baseline and differential.
GenevisibleiQ9JKF4. MM.

Interactioni

Subunit structurei

Associated with FCER1G.

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000024118.

Structurei

3D structure databases

ProteinModelPortaliQ9JKF4.
SMRiQ9JKF4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini86 – 203C-type lectinPROSITE-ProRule annotationAdd BLAST118

Domaini

A short stretch of the intracellular domain (AA 8-14) proximal to the transmembrane domain is required for association with Fc receptor gamma chain.

Keywords - Domaini

Signal-anchor, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IS3R. Eukaryota.
ENOG410Z760. LUCA.
GeneTreeiENSGT00760000118924.
HOGENOMiHOG000059556.
HOVERGENiHBG050992.
InParanoidiQ9JKF4.
KOiK17514.
OMAiCASIVFW.
OrthoDBiEOG091G0HG1.
PhylomeDBiQ9JKF4.
TreeFamiTF333341.

Family and domain databases

CDDicd03590. CLECT_DC-SIGN_like. 1 hit.
Gene3Di3.10.100.10. 1 hit.
InterProiView protein in InterPro
IPR001304. C-type_lectin-like.
IPR016186. C-type_lectin-like/link.
IPR018378. C-type_lectin_CS.
IPR033989. CD209-like_CTLD.
IPR016187. CTDL_fold.
PfamiView protein in Pfam
PF00059. Lectin_C. 1 hit.
SMARTiView protein in SMART
SM00034. CLECT. 1 hit.
SUPFAMiSSF56436. SSF56436. 1 hit.
PROSITEiView protein in PROSITE
PS00615. C_TYPE_LECTIN_1. 1 hit.
PS50041. C_TYPE_LECTIN_2. 1 hit.

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9JKF4-1) [UniParc]FASTAAdd to basket
Also known as: Alpha

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MVQERQSQGK GVCWTLRLWS AAVISMLLLS TCFIASCVVT YQFIMDQPSR
60 70 80 90 100
RLYELHTYHS SLTCFSEGTM VSEKMWGCCP NHWKSFGSSC YLISTKENFW
110 120 130 140 150
STSEQNCVQM GAHLVVINTE AEQNFITQQL NESLSYFLGL SDPQGNGKWQ
160 170 180 190 200
WIDDTPFSQN VRFWHPHEPN LPEERCVSIV YWNPSKWGWN DVFCDSKHNS

ICEMKKIYL
Length:209
Mass (Da):24,324
Last modified:October 1, 2000 - v1
Checksum:i7AB8BDC0DB1EA5ED
GO
Isoform 2 (identifier: Q9JKF4-2) [UniParc]FASTAAdd to basket
Also known as: Beta

The sequence of this isoform differs from the canonical sequence as follows:
     39-72: Missing.

Show »
Length:175
Mass (Da):20,313
Checksum:iE1C9632687BF0EA9
GO
Isoform 3 (identifier: Q9JKF4-3) [UniParc]FASTAAdd to basket
Also known as: Gamma

The sequence of this isoform differs from the canonical sequence as follows:
     142-182: Missing.

Show »
Length:168
Mass (Da):19,332
Checksum:iCF2ADDFE054EB038
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_01284639 – 72Missing in isoform 2. 1 PublicationAdd BLAST34
Alternative sequenceiVSP_012847142 – 182Missing in isoform 3. 1 PublicationAdd BLAST41

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF240357 mRNA. Translation: AAF67177.1.
AF240358 mRNA. Translation: AAF67178.1.
AF240359 mRNA. Translation: AAF67179.1.
BC023008 mRNA. Translation: AAH23008.1.
CCDSiCCDS20512.1. [Q9JKF4-1]
CCDS51895.1. [Q9JKF4-2]
RefSeqiNP_001177250.1. NM_001190321.1. [Q9JKF4-2]
NP_064385.1. NM_020001.2. [Q9JKF4-1]
UniGeneiMm.271782.

Genome annotation databases

EnsembliENSMUST00000024118; ENSMUSP00000024118; ENSMUSG00000023349. [Q9JKF4-1]
ENSMUST00000112554; ENSMUSP00000108173; ENSMUSG00000023349. [Q9JKF4-2]
GeneIDi56620.
KEGGimmu:56620.
UCSCiuc009dqe.2. mouse. [Q9JKF4-1]
uc009dqf.2. mouse. [Q9JKF4-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Web resourcesi

Functional Glycomics Gateway - Glycan Binding

Dectin-2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF240357 mRNA. Translation: AAF67177.1.
AF240358 mRNA. Translation: AAF67178.1.
AF240359 mRNA. Translation: AAF67179.1.
BC023008 mRNA. Translation: AAH23008.1.
CCDSiCCDS20512.1. [Q9JKF4-1]
CCDS51895.1. [Q9JKF4-2]
RefSeqiNP_001177250.1. NM_001190321.1. [Q9JKF4-2]
NP_064385.1. NM_020001.2. [Q9JKF4-1]
UniGeneiMm.271782.

3D structure databases

ProteinModelPortaliQ9JKF4.
SMRiQ9JKF4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000024118.

PTM databases

PhosphoSitePlusiQ9JKF4.

Proteomic databases

PaxDbiQ9JKF4.
PRIDEiQ9JKF4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000024118; ENSMUSP00000024118; ENSMUSG00000023349. [Q9JKF4-1]
ENSMUST00000112554; ENSMUSP00000108173; ENSMUSG00000023349. [Q9JKF4-2]
GeneIDi56620.
KEGGimmu:56620.
UCSCiuc009dqe.2. mouse. [Q9JKF4-1]
uc009dqf.2. mouse. [Q9JKF4-2]

Organism-specific databases

CTDi56620.
MGIiMGI:1861231. Clec4n.

Phylogenomic databases

eggNOGiENOG410IS3R. Eukaryota.
ENOG410Z760. LUCA.
GeneTreeiENSGT00760000118924.
HOGENOMiHOG000059556.
HOVERGENiHBG050992.
InParanoidiQ9JKF4.
KOiK17514.
OMAiCASIVFW.
OrthoDBiEOG091G0HG1.
PhylomeDBiQ9JKF4.
TreeFamiTF333341.

Enzyme and pathway databases

ReactomeiR-MMU-5621480. Dectin-2 family.

Miscellaneous databases

PROiPR:Q9JKF4.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000023349.
CleanExiMM_CLEC4N.
ExpressionAtlasiQ9JKF4. baseline and differential.
GenevisibleiQ9JKF4. MM.

Family and domain databases

CDDicd03590. CLECT_DC-SIGN_like. 1 hit.
Gene3Di3.10.100.10. 1 hit.
InterProiView protein in InterPro
IPR001304. C-type_lectin-like.
IPR016186. C-type_lectin-like/link.
IPR018378. C-type_lectin_CS.
IPR033989. CD209-like_CTLD.
IPR016187. CTDL_fold.
PfamiView protein in Pfam
PF00059. Lectin_C. 1 hit.
SMARTiView protein in SMART
SM00034. CLECT. 1 hit.
SUPFAMiSSF56436. SSF56436. 1 hit.
PROSITEiView protein in PROSITE
PS00615. C_TYPE_LECTIN_1. 1 hit.
PS50041. C_TYPE_LECTIN_2. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiCLC6A_MOUSE
AccessioniPrimary (citable) accession number: Q9JKF4
Secondary accession number(s): Q9JKF2, Q9JKF3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 15, 2005
Last sequence update: October 1, 2000
Last modified: June 7, 2017
This is version 133 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.