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Protein

CMRF35-like molecule 1

Gene

Cd300lf

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

Functioni

Acts as an inhibitory receptor for myeloid cells and mast cells (PubMed:17438331). Positively regulates the phagocytosis of apoptotic cells (efferocytosis) via phosphatidylserine (PS) recognition; recognizes and binds PS as a ligand which is expressed on the surface of apoptotic cells (PubMed:21865548). Plays an important role in the maintenance of immune homeostasis, by promoting macrophage-mediated efferocytosis and by inhibiting dendritic cell-mediated efferocytosis (PubMed:26768664). Negatively regulates Fc epsilon receptor-dependent mast cell activation and allergic responses via binding to ceramide which acts as a ligand (PubMed:23123064). May act as a coreceptor for interleukin 4 (IL-4). Associates with and regulates IL-4 receptor alpha-mediated responses by augmenting IL-4- and IL-13-induced signaling (PubMed:26124135). Negatively regulates the Toll-like receptor (TLR) signaling mediated by MYD88 and TRIF through activation of PTPN6/SHP-1 and PTPN11/SHP-2 (By similarity). Inhibits osteoclast formation (PubMed:14662855). Induces macrophage cell death upon engagement (PubMed:18097021).By similarity7 Publications
(Microbial infection) Acts as a functional murine norovirus (MNV) receptor that mediates binding to the cell surface and is both necessary and sufficient for viral entry and replication. Primary determinant of MNV species tropism and is sufficient to render cells permissive to infection by MNV. Can render nonmurine mammalian cells susceptible to MNV infection (PubMed:27681626, PubMed:27540007).2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei241Phosphatase-bindingBy similarity1

GO - Molecular functioni

  • ceramide binding Source: UniProtKB
  • interleukin-4 receptor binding Source: UniProtKB
  • phosphatidylserine binding Source: UniProtKB
  • virus receptor activity Source: UniProtKB

GO - Biological processi

  • interleukin-13-mediated signaling pathway Source: UniProtKB
  • negative regulation of apoptotic cell clearance Source: UniProtKB
  • negative regulation of mast cell activation Source: UniProtKB
  • negative regulation of MyD88-dependent toll-like receptor signaling pathway Source: UniProtKB
  • osteoclast differentiation Source: MGI
  • positive regulation of apoptotic cell clearance Source: UniProtKB
  • positive regulation of interleukin-4-mediated signaling pathway Source: UniProtKB
  • TRIF-dependent toll-like receptor signaling pathway Source: UniProtKB

Keywordsi

Molecular functionHost cell receptor for virus entry, Receptor
Biological processImmunity
LigandLipid-binding

Enzyme and pathway databases

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

Names & Taxonomyi

Protein namesi
Recommended name:
CMRF35-like molecule 1
Short name:
CLM-1
Alternative name(s):
CD300 antigen-like family member F
Leukocyte mono-Ig-like receptor 3
Myeloid-associated immunoglobulin-like receptor 5
Short name:
MAIR-5
Short name:
MAIR-V
CD_antigen: CD300f
Gene namesi
Name:Cd300lf
Synonyms:Clm1, Lmir3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 11

Organism-specific databases

MGIiMGI:2442359. Cd300lf.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini20 – 193ExtracellularSequence analysisAdd BLAST174
Transmembranei194 – 214HelicalSequence analysisAdd BLAST21
Topological domaini215 – 337CytoplasmicSequence analysisAdd BLAST123

GO - Cellular componenti

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 19Sequence analysisAdd BLAST19
ChainiPRO_000024782620 – 337CMRF35-like molecule 1Add BLAST318

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi41 ↔ 1092 Publications
Disulfide bondi55 ↔ 632 Publications

Post-translational modificationi

Phosphorylated on tyrosine.1 Publication

Keywords - PTMi

Disulfide bond, Phosphoprotein

Proteomic databases

PaxDbiQ6SJQ7.
PRIDEiQ6SJQ7.

PTM databases

iPTMnetiQ6SJQ7.
PhosphoSitePlusiQ6SJQ7.

Expressioni

Tissue specificityi

Expressed in myeloid cells. Present on the surface of macrophages (at protein level). Highly expressed by alveolar, splenic macrophages and bone marrow-derived dendritic cells. Expression is increased following aeroallergen challenge in macrophages, mast cells, and eosinophils.4 Publications

Inductioni

Up-regulated by interleukin-4/IL-4.1 Publication

Gene expression databases

BgeeiENSMUSG00000047798.
CleanExiMM_CD300LF.
ExpressionAtlasiQ6SJQ7. baseline and differential.
GenevisibleiQ6SJQ7. MM.

Interactioni

Subunit structurei

Interacts with PTPN6/SHP-1 in a tyrosine phosphorylation dependent manner (PubMed:14662855). Interacts with IL4R (PubMed:26124135).2 Publications

GO - Molecular functioni

  • interleukin-4 receptor binding Source: UniProtKB

Protein-protein interaction databases

BioGridi232945. 1 interactor.
IntActiQ6SJQ7. 1 interactor.
STRINGi10090.ENSMUSP00000102171.

Structurei

Secondary structure

1337
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi21 – 24Combined sources4
Beta strandi27 – 32Combined sources6
Beta strandi37 – 43Combined sources7
Helixi45 – 47Combined sources3
Beta strandi52 – 59Combined sources8
Helixi60 – 62Combined sources3
Beta strandi64 – 68Combined sources5
Beta strandi71 – 73Combined sources3
Beta strandi76 – 78Combined sources3
Beta strandi81 – 86Combined sources6
Turni87 – 90Combined sources4
Beta strandi91 – 96Combined sources6
Helixi101 – 103Combined sources3
Beta strandi105 – 111Combined sources7
Beta strandi114 – 116Combined sources3
Beta strandi119 – 127Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZOXX-ray2.10A20-138[»]
5FFLX-ray1.60A20-138[»]
ProteinModelPortaliQ6SJQ7.
SMRiQ6SJQ7.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ6SJQ7.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini20 – 125Ig-like V-typeAdd BLAST106

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni39 – 45Plays an important role in murine norovirus (MNV) binding1 Publication7

Sequence similaritiesi

Belongs to the CD300 family.Curated

Keywords - Domaini

Immunoglobulin domain, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IZ4I. Eukaryota.
ENOG410YT8T. LUCA.
GeneTreeiENSGT00470000042273.
HOGENOMiHOG000231065.
HOVERGENiHBG050999.
InParanoidiQ6SJQ7.
KOiK20395.
OMAiEGDLCYA.
OrthoDBiEOG091G0O8X.
PhylomeDBiQ6SJQ7.
TreeFamiTF334441.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
InterProiView protein in InterPro
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
PfamiView protein in Pfam
PF07686. V-set. 1 hit.
SMARTiView protein in SMART
SM00409. IG. 1 hit.
SUPFAMiSSF48726. SSF48726. 1 hit.

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

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

Isoform 1 (identifier: Q6SJQ7-1) [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
MHLSLLVPFL FWITGCCTAE DPVTGPEEVS GQEQGSLTVQ CRYTSGWKDY
60 70 80 90 100
KKYWCQGVPQ RSCKTLVETD ASEQLVKKNR VSIRDNQRDF IFTVTMEDLR
110 120 130 140 150
MSDAGIYWCG ITKGGLDPMF KVTVNIGPAI QVPITVPTMP PITSTTTIFT
160 170 180 190 200
VTTTVKETSM FPTLTSYYSD NGHGGGDSGG GEDGVGDGFL DLSVLLPVIS
210 220 230 240 250
AVLLLLLLVA SLFAWRMVRR QKKAAGPPSE QAQSLEGDLC YADLSLKQPR
260 270 280 290 300
TSPGSSWKKG SSMSSSGKDH QEEVEYVTMA PFPREEVSYA ALTLAGLGQE
310 320 330
PTYGNTGCPI THVPRTGLEE ETTEYSSIRR PLPAAMP
Length:337
Mass (Da):36,715
Last modified:July 5, 2004 - v1
Checksum:i0C6EB6E666223CD5
GO
Isoform 2 (identifier: Q6SJQ7-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     129-135: Missing.

Note: No experimental confirmation available.
Show »
Length:330
Mass (Da):35,992
Checksum:iBB52F7F1ED34558C
GO
Isoform 3 (identifier: Q6SJQ7-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     212-265: Missing.

Note: No experimental confirmation available.
Show »
Length:283
Mass (Da):30,791
Checksum:iC6AC9719C7FD5661
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti20E → Q in AB292061 (PubMed:17438331).Curated1
Sequence conflicti37L → V in AAM19096 (Ref. 3) Curated1
Sequence conflicti56 – 65QGVPQRSCKT → RGAYWKSCEI in AB292061 (PubMed:17438331).Curated10
Sequence conflicti71A → K in AB292061 (PubMed:17438331).Curated1
Sequence conflicti114 – 116GGL → AGP in AB292061 (PubMed:17438331).Curated3
Sequence conflicti123T → A in AB292061 (PubMed:17438331).Curated1
Sequence conflicti166S → G in AB292061 (PubMed:17438331).Curated1
Sequence conflicti337P → H in AB292061 (PubMed:17438331).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_020066129 – 135Missing in isoform 2. 1 Publication7
Alternative sequenceiVSP_020067212 – 265Missing in isoform 3. 1 PublicationAdd BLAST54

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY457047 mRNA. Translation: AAR27938.1.
AB292061 mRNA. No translation available.
AF251703 mRNA. Translation: AAM19096.1.
AL606487 Genomic DNA. Translation: CAM21607.1.
AL606487 Genomic DNA. Translation: CAM21609.1.
BC057864 mRNA. Translation: AAH57864.1.
CCDSiCCDS25619.1. [Q6SJQ7-2]
CCDS48980.1. [Q6SJQ7-1]
RefSeqiNP_001162624.1. NM_001169153.1. [Q6SJQ7-1]
NP_663609.2. NM_145634.3. [Q6SJQ7-2]
XP_017170042.1. XM_017314553.1. [Q6SJQ7-1]
UniGeneiMm.277387.

Genome annotation databases

EnsembliENSMUST00000051264; ENSMUSP00000053983; ENSMUSG00000047798. [Q6SJQ7-2]
ENSMUST00000106561; ENSMUSP00000102171; ENSMUSG00000047798. [Q6SJQ7-1]
GeneIDi246746.
KEGGimmu:246746.
UCSCiuc007mgn.2. mouse. [Q6SJQ7-1]
uc011yhh.1. mouse. [Q6SJQ7-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY457047 mRNA. Translation: AAR27938.1.
AB292061 mRNA. No translation available.
AF251703 mRNA. Translation: AAM19096.1.
AL606487 Genomic DNA. Translation: CAM21607.1.
AL606487 Genomic DNA. Translation: CAM21609.1.
BC057864 mRNA. Translation: AAH57864.1.
CCDSiCCDS25619.1. [Q6SJQ7-2]
CCDS48980.1. [Q6SJQ7-1]
RefSeqiNP_001162624.1. NM_001169153.1. [Q6SJQ7-1]
NP_663609.2. NM_145634.3. [Q6SJQ7-2]
XP_017170042.1. XM_017314553.1. [Q6SJQ7-1]
UniGeneiMm.277387.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZOXX-ray2.10A20-138[»]
5FFLX-ray1.60A20-138[»]
ProteinModelPortaliQ6SJQ7.
SMRiQ6SJQ7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi232945. 1 interactor.
IntActiQ6SJQ7. 1 interactor.
STRINGi10090.ENSMUSP00000102171.

PTM databases

iPTMnetiQ6SJQ7.
PhosphoSitePlusiQ6SJQ7.

Proteomic databases

PaxDbiQ6SJQ7.
PRIDEiQ6SJQ7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000051264; ENSMUSP00000053983; ENSMUSG00000047798. [Q6SJQ7-2]
ENSMUST00000106561; ENSMUSP00000102171; ENSMUSG00000047798. [Q6SJQ7-1]
GeneIDi246746.
KEGGimmu:246746.
UCSCiuc007mgn.2. mouse. [Q6SJQ7-1]
uc011yhh.1. mouse. [Q6SJQ7-2]

Organism-specific databases

CTDi146722.
MGIiMGI:2442359. Cd300lf.

Phylogenomic databases

eggNOGiENOG410IZ4I. Eukaryota.
ENOG410YT8T. LUCA.
GeneTreeiENSGT00470000042273.
HOGENOMiHOG000231065.
HOVERGENiHBG050999.
InParanoidiQ6SJQ7.
KOiK20395.
OMAiEGDLCYA.
OrthoDBiEOG091G0O8X.
PhylomeDBiQ6SJQ7.
TreeFamiTF334441.

Enzyme and pathway databases

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

Miscellaneous databases

EvolutionaryTraceiQ6SJQ7.
PROiPR:Q6SJQ7.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000047798.
CleanExiMM_CD300LF.
ExpressionAtlasiQ6SJQ7. baseline and differential.
GenevisibleiQ6SJQ7. MM.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
InterProiView protein in InterPro
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
PfamiView protein in Pfam
PF07686. V-set. 1 hit.
SMARTiView protein in SMART
SM00409. IG. 1 hit.
SUPFAMiSSF48726. SSF48726. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiCLM1_MOUSE
AccessioniPrimary (citable) accession number: Q6SJQ7
Secondary accession number(s): A2A6Z1
, A2A6Z3, Q6PEU7, Q8K4V9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 25, 2006
Last sequence update: July 5, 2004
Last modified: May 10, 2017
This is version 98 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

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.