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Protein

C-type lectin domain family 2 member I

Gene

Clec2i

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

Functioni

Inhibits osteoclast formation. Receptor for KLRB1F. Enhances T-cell activation. Plays a role in splenocyte activation, T-cell responses and IL-2 production.2 Publications

GO - Molecular functioni

  • carbohydrate binding Source: MGI
  • natural killer cell lectin-like receptor binding Source: MGI
  • transmembrane signaling receptor activity Source: MGI

GO - Biological processi

  • membrane raft assembly Source: BHF-UCL
  • negative regulation of osteoclast differentiation Source: BHF-UCL
  • positive regulation of immunological synapse formation Source: BHF-UCL
  • receptor clustering Source: MGI
  • regulation of actin filament polymerization Source: MGI
  • regulation of interleukin-2 biosynthetic process Source: MGI
  • regulation of T cell proliferation Source: MGI
  • T cell receptor signaling pathway Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Receptor

Keywords - Ligandi

Lectin

Enzyme and pathway databases

ReactomeiR-MMU-198933. Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell.

Names & Taxonomyi

Protein namesi
Recommended name:
C-type lectin domain family 2 member I
Alternative name(s):
C-type lectin-related protein DCL1
C-type lectin-related protein G
Short name:
Clr-g
Lymphoid-derived C-type lectin-1
Short name:
LCL-1
Osteoclast inhibitory lectin-related protein 2
Short name:
Ocil-related protein 2
Gene namesi
Name:Clec2i
Synonyms:Clrg, Dcl1, Ocilrp2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 6

Organism-specific databases

MGIiMGI:2136650. Clec2i.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 5353CytoplasmicSequence analysisAdd
BLAST
Transmembranei54 – 7421Helical; Signal-anchor for type II membrane proteinSequence analysisAdd
BLAST
Topological domaini75 – 217143ExtracellularSequence analysisAdd
BLAST

GO - Cellular componenti

  • cell surface Source: MGI
  • external side of plasma membrane Source: MGI
  • integral component of membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 217217C-type lectin domain family 2 member IPRO_0000315291Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi92 ↔ 103PROSITE-ProRule annotation
Glycosylationi112 – 1121N-linked (GlcNAc...)Sequence analysis
Disulfide bondi120 ↔ 202PROSITE-ProRule annotation

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

EPDiQ9WVF9.
PaxDbiQ9WVF9.
PRIDEiQ9WVF9.

Expressioni

Tissue specificityi

Detected in osteoblasts, growth plate chondrocytes and skeletal muscle overlying the bone (at protein level). Detected in spleen, B-cells, dendritic cells, thymus, and in IL2-activated natural killer cells.3 Publications

Inductioni

Up-regulated in CD4+ T-cells upon stimulation with CD3-ligands. Up-regulated in cultured calvarial osteoblasts by 1,25-dihydroxyvitamin D3. Constitutively expressed in cultured bone marrow cells during osteoclast formation.2 Publications

Gene expression databases

BgeeiQ9WVF9.
CleanExiMM_CLEC2I.
ExpressionAtlasiQ9WVF9. baseline and differential.
GenevisibleiQ9WVF9. MM.

Interactioni

GO - Molecular functioni

  • natural killer cell lectin-like receptor binding Source: MGI

Protein-protein interaction databases

BioGridi220229. 1 interaction.
STRINGi10090.ENSMUSP00000032519.

Structurei

Secondary structure

1
217
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi87 – 915Combined sources
Beta strandi97 – 993Combined sources
Beta strandi102 – 1065Combined sources
Helixi113 – 12210Combined sources
Helixi133 – 14210Combined sources
Turni143 – 1453Combined sources
Beta strandi148 – 1536Combined sources
Beta strandi180 – 1856Combined sources
Beta strandi188 – 1925Combined sources
Beta strandi200 – 2056Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3RS1X-ray1.94A/B85-206[»]
ProteinModelPortaliQ9WVF9.
SMRiQ9WVF9. Positions 85-206.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini99 – 203105C-type lectinPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 C-type lectin domain.PROSITE-ProRule annotation

Keywords - Domaini

Signal-anchor, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG4297. Eukaryota.
ENOG410XPJ1. LUCA.
GeneTreeiENSGT00710000106527.
HOGENOMiHOG000060206.
HOVERGENiHBG107716.
InParanoidiQ9WVF9.
OrthoDBiEOG7R833G.
TreeFamiTF351467.

Family and domain databases

Gene3Di3.10.100.10. 1 hit.
InterProiIPR001304. C-type_lectin.
IPR016186. C-type_lectin-like.
IPR016187. C-type_lectin_fold.
[Graphical view]
PfamiPF00059. Lectin_C. 1 hit.
[Graphical view]
SMARTiSM00034. CLECT. 1 hit.
[Graphical view]
SUPFAMiSSF56436. SSF56436. 1 hit.
PROSITEiPS50041. C_TYPE_LECTIN_2. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9WVF9-1) [UniParc]FASTAAdd to basket

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
MPDCLETGEK LFVHNMNAQC VQKPEEGNGP LGTGGKIVQG KCFRIISTVS
60 70 80 90 100
PVKLYCCYGV IMVLTVAVIA LSVALSTKKT EQIIINKTYA ACSKNWTGVG
110 120 130 140 150
NKCFYFSGYP RNWTFAQAFC MAQEAQLARF DNEEELIFLK RFKGDFDCWI
160 170 180 190 200
GLHRESSEHP WKWTNNTEYN NMNPILGVGR YAYLSSDRIS SSRSYINRMW
210
ICSKLNNYNL HCQTPPV
Length:217
Mass (Da):24,671
Last modified:November 1, 1999 - v1
Checksum:i28D497A39F05DCD8
GO
Isoform 2 (identifier: Q9WVF9-2) [UniParc]FASTAAdd to basket

Also known as: Lymphoid-derived C-type lectin-1b, LCL-1b

The sequence of this isoform differs from the canonical sequence as follows:
     35-35: G → GVQCC

Show »
Length:221
Mass (Da):25,105
Checksum:iF9F5F72903323310
GO
Isoform 3 (identifier: Q9WVF9-3) [UniParc]FASTAAdd to basket

Also known as: Lymphoid-derived C-type lectin-1a, LCL-1a

The sequence of this isoform differs from the canonical sequence as follows:
     1-15: Missing.
     35-35: G → GVQCC

Show »
Length:206
Mass (Da):23,390
Checksum:iAB986F02ADEF193C
GO
Isoform 4 (identifier: Q9WVF9-4) [UniParc]FASTAAdd to basket

Also known as: Lymphoid-derived C-type lectin-1c, LCL-1c

The sequence of this isoform differs from the canonical sequence as follows:
     1-61: Missing.

Show »
Length:156
Mass (Da):18,087
Checksum:i8EF71574F2F459EB
GO

Sequence cautioni

The sequence AAK70359.1 differs from that shown. Reason: Erroneous initiation. Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 6161Missing in isoform 4. 1 PublicationVSP_030530Add
BLAST
Alternative sequencei1 – 1515Missing in isoform 3. 1 PublicationVSP_030531Add
BLAST
Alternative sequencei35 – 351G → GVQCC in isoform 2 and isoform 3. 2 PublicationsVSP_030532

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF350411 mRNA. Translation: AAK70359.1. Different initiation.
AY137343 Genomic DNA. Translation: AAN15951.1.
AY137343 Genomic DNA. Translation: AAN15952.1.
AY137344 mRNA. Translation: AAN15953.1.
AY137345 mRNA. Translation: AAN15954.1.
AY256574 mRNA. Translation: AAP32744.1.
AY256575 mRNA. Translation: AAP32745.1.
AY256576 mRNA. Translation: AAP32746.1.
AF121352 mRNA. Translation: AAD22055.1.
DQ143112 Genomic DNA. Translation: ABA43362.1.
CCDSiCCDS51920.1. [Q9WVF9-1]
CCDS71844.1. [Q9WVF9-2]
RefSeqiNP_001276635.1. NM_001289706.1.
NP_001276636.1. NM_001289707.1. [Q9WVF9-2]
NP_001276637.1. NM_001289708.1. [Q9WVF9-4]
NP_064653.1. NM_020257.2. [Q9WVF9-1]
UniGeneiMm.391513.
Mm.440830.

Genome annotation databases

EnsembliENSMUST00000032519; ENSMUSP00000032519; ENSMUSG00000030365. [Q9WVF9-1]
ENSMUST00000159866; ENSMUSP00000123804; ENSMUSG00000030365. [Q9WVF9-2]
ENSMUST00000160867; ENSMUSP00000145115; ENSMUSG00000030365. [Q9WVF9-4]
GeneIDi93675.
KEGGimmu:93675.
UCSCiuc009eeu.2. mouse. [Q9WVF9-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF350411 mRNA. Translation: AAK70359.1. Different initiation.
AY137343 Genomic DNA. Translation: AAN15951.1.
AY137343 Genomic DNA. Translation: AAN15952.1.
AY137344 mRNA. Translation: AAN15953.1.
AY137345 mRNA. Translation: AAN15954.1.
AY256574 mRNA. Translation: AAP32744.1.
AY256575 mRNA. Translation: AAP32745.1.
AY256576 mRNA. Translation: AAP32746.1.
AF121352 mRNA. Translation: AAD22055.1.
DQ143112 Genomic DNA. Translation: ABA43362.1.
CCDSiCCDS51920.1. [Q9WVF9-1]
CCDS71844.1. [Q9WVF9-2]
RefSeqiNP_001276635.1. NM_001289706.1.
NP_001276636.1. NM_001289707.1. [Q9WVF9-2]
NP_001276637.1. NM_001289708.1. [Q9WVF9-4]
NP_064653.1. NM_020257.2. [Q9WVF9-1]
UniGeneiMm.391513.
Mm.440830.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3RS1X-ray1.94A/B85-206[»]
ProteinModelPortaliQ9WVF9.
SMRiQ9WVF9. Positions 85-206.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi220229. 1 interaction.
STRINGi10090.ENSMUSP00000032519.

Proteomic databases

EPDiQ9WVF9.
PaxDbiQ9WVF9.
PRIDEiQ9WVF9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000032519; ENSMUSP00000032519; ENSMUSG00000030365. [Q9WVF9-1]
ENSMUST00000159866; ENSMUSP00000123804; ENSMUSG00000030365. [Q9WVF9-2]
ENSMUST00000160867; ENSMUSP00000145115; ENSMUSG00000030365. [Q9WVF9-4]
GeneIDi93675.
KEGGimmu:93675.
UCSCiuc009eeu.2. mouse. [Q9WVF9-1]

Organism-specific databases

CTDi93675.
MGIiMGI:2136650. Clec2i.

Phylogenomic databases

eggNOGiKOG4297. Eukaryota.
ENOG410XPJ1. LUCA.
GeneTreeiENSGT00710000106527.
HOGENOMiHOG000060206.
HOVERGENiHBG107716.
InParanoidiQ9WVF9.
OrthoDBiEOG7R833G.
TreeFamiTF351467.

Enzyme and pathway databases

ReactomeiR-MMU-198933. Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell.

Miscellaneous databases

NextBioi351388.
PROiQ9WVF9.
SOURCEiSearch...

Gene expression databases

BgeeiQ9WVF9.
CleanExiMM_CLEC2I.
ExpressionAtlasiQ9WVF9. baseline and differential.
GenevisibleiQ9WVF9. MM.

Family and domain databases

Gene3Di3.10.100.10. 1 hit.
InterProiIPR001304. C-type_lectin.
IPR016186. C-type_lectin-like.
IPR016187. C-type_lectin_fold.
[Graphical view]
PfamiPF00059. Lectin_C. 1 hit.
[Graphical view]
SMARTiSM00034. CLECT. 1 hit.
[Graphical view]
SUPFAMiSSF56436. SSF56436. 1 hit.
PROSITEiPS50041. C_TYPE_LECTIN_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Cloning of Clr, a new family of lectin-like genes localized between mouse Nkrp1a and Cd69."
    Plougastel B., Dubbelde C., Yokoyama W.M.
    Immunogenetics 53:209-214(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
    Strain: C57BL/6J.
    Tissue: Natural killer cell.
  2. "Osteoclast inhibitory lectin, a family of new osteoclast inhibitors."
    Zhou H., Kartsogiannis V., Quinn J.M.W., Ly C., Gange C., Elliott J., Ng K.W., Gillespie M.T.
    J. Biol. Chem. 277:48808-48815(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORMS 1 AND 2), FUNCTION, INDUCTION, TISSUE SPECIFICITY.
    Strain: 129/Sv and C57BL/6J.
  3. "C-type lectin OCILRP2/Clr-g and its ligand NKRP1f costimulate T cell proliferation and IL-2 production."
    Tian W., Nunez R., Cheng S., Ding Y., Tumang J., Lyddane C., Roman C., Liou H.-C.
    Cell. Immunol. 234:39-53(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2; 3 AND 4), FUNCTION, SUBCELLULAR LOCATION, INDUCTION, TISSUE SPECIFICITY.
    Strain: C57BL/6J.
    Tissue: Spleen.
  4. "A novel c-type lectin (DCL1) expressed in bone marrow derived dendritic cells."
    Gorski K.S., Huang X., Pardoll D.M., Tsuchiya H.
    Submitted (JAN-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Strain: BALB/cJ.
    Tissue: Dendritic cell.
  5. "Molecular and genetic basis for strain-dependent NK1.1 alloreactivity of mouse NK cells."
    Carlyle J.R., Mesci A., Ljutic B., Belanger S., Tai L.-H., Rousselle E., Troke A.D., Proteau M.-F., Makrigiannis A.P.
    J. Immunol. 176:7511-7524(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 78-171.
    Strain: BALB/cByJ.

Entry informationi

Entry nameiCLC2I_MOUSE
AccessioniPrimary (citable) accession number: Q9WVF9
Secondary accession number(s): Q1AFZ2
, Q7TSP6, Q7TSP7, Q8BFR3, Q924B1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: November 1, 1999
Last modified: May 11, 2016
This is version 111 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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.