Human Gene LILRB3 (ENST00000391750.5) from GENCODE V44
  Description: May act as receptor for class I MHC antigens. Becomes activated upon coligation of LILRB3 and immune receptors, such as FCGR2B and the B-cell receptor. Down-regulates antigen-induced B- cell activation by recruiting phosphatases to its immunoreceptor tyrosine-based inhibitor motifs (ITIM) (By similarity). (from UniProt O75022)
RefSeq Summary (NM_006864): This gene is a member of the leukocyte immunoglobulin-like receptor (LIR) family, which is found in a gene cluster at chromosomal region 19q13.4. The encoded protein belongs to the subfamily B class of LIR receptors which contain two or four extracellular immunoglobulin domains, a transmembrane domain, and two to four cytoplasmic immunoreceptor tyrosine-based inhibitory motifs (ITIMs). The receptor is expressed on immune cells where it binds to MHC class I molecules on antigen-presenting cells and transduces a negative signal that inhibits stimulation of an immune response. It is thought to control inflammatory responses and cytotoxicity to help focus the immune response and limit autoreactivity. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000391750.5
Gencode Gene: ENSG00000204577.12
Transcript (Including UTRs)
   Position: hg38 chr19:54,216,278-54,223,506 Size: 7,229 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg38 chr19:54,217,093-54,222,976 Size: 5,884 Coding Exon Count: 13 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:54,216,278-54,223,506)mRNA (may differ from genome)Protein (631 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGencodeGeneCardsHGNC
LynxMalacardsMGIneXtProtPubMedReactome
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: LIRB3_HUMAN
DESCRIPTION: RecName: Full=Leukocyte immunoglobulin-like receptor subfamily B member 3; Short=LIR-3; Short=Leukocyte immunoglobulin-like receptor 3; AltName: Full=CD85 antigen-like family member A; AltName: Full=Immunoglobulin-like transcript 5; Short=ILT-5; AltName: Full=Monocyte inhibitory receptor HL9; AltName: CD_antigen=CD85a; Flags: Precursor;
FUNCTION: May act as receptor for class I MHC antigens. Becomes activated upon coligation of LILRB3 and immune receptors, such as FCGR2B and the B-cell receptor. Down-regulates antigen-induced B- cell activation by recruiting phosphatases to its immunoreceptor tyrosine-based inhibitor motifs (ITIM) (By similarity).
SUBUNIT: Interacts with LYN, PTPN6/SHP-1 and PTPN11/SHP-2 (By similarity).
SUBCELLULAR LOCATION: Cell membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Detected in monocytes and B-cells.
DOMAIN: Contains 3 copies of a cytoplasmic motif that is referred to as the immunoreceptor tyrosine-based inhibitor motif (ITIM). This motif is involved in modulation of cellular responses. The phosphorylated ITIM motif can bind the SH2 domain of several SH2- containing phosphatases, including PTPN6/SHP-1, resulting in the dephosphorylation of the downstream protein kinases SYK and BTK (By similarity).
PTM: Phosphorylated on tyrosine residues by LYN. Phosphorylation at Tyr-595 and Tyr-625 is important for interaction with PTPN6/SHP-1 and PTPN11/SHP-2 (By similarity).
MISCELLANEOUS: Belongs to the leukocyte receptor cluster (LRC) present on 19q13.4.
SIMILARITY: Contains 4 Ig-like C2-type (immunoglobulin-like) domains.

-  Primer design for this transcript
 

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-  MalaCards Disease Associations
  MalaCards Gene Search: LILRB3
Diseases sorted by gene-association score: takayasu arteritis (3)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -59.40137-0.434 Picture PostScript Text
3' UTR -241.30815-0.296 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub

ModBase Predicted Comparative 3D Structure on O75022
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004888 transmembrane signaling receptor activity
GO:0005515 protein binding
GO:0038023 signaling receptor activity
GO:0001540 beta-amyloid binding

Biological Process:
GO:0002250 adaptive immune response
GO:0002376 immune system process
GO:0006952 defense response
GO:0007166 cell surface receptor signaling pathway
GO:0043312 neutrophil degranulation
GO:0045671 negative regulation of osteoclast differentiation

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030667 secretory granule membrane


-  Descriptions from all associated GenBank mRNAs
  BC028153 - Homo sapiens cDNA clone IMAGE:5217134.
JD518130 - Sequence 499154 from Patent EP1572962.
JD444127 - Sequence 425151 from Patent EP1572962.
JD445092 - Sequence 426116 from Patent EP1572962.
AK290917 - Homo sapiens cDNA FLJ75015 complete cds, highly similar to Homo sapiens leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3 (LILRB3), mRNA.
U91928 - Human clone HL9 monocyte inhibitory receptor precursor mRNA, complete cds.
AF025533 - Homo sapiens leucocyte immunoglobulin-like receptor-3 (LIR-3) mRNA, complete cds.
AK223265 - Homo sapiens mRNA for leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3 variant, clone: SYN01171.
AF009633 - Homo sapiens clone 17.11 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009635 - Homo sapiens clone 17.7 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009636 - Homo sapiens clone 17.8 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009638 - Homo sapiens clone 22 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009639 - Homo sapiens clone 31 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009640 - Homo sapiens clone 33 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009641 - Homo sapiens clone 36 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009642 - Homo sapiens clone 40 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009643 - Homo sapiens clone 6 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009644 - Homo sapiens clone 41 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF031555 - Homo sapiens clone 17.23 immunoglobulin-like transcript 5 mRNA, complete cds.
AF000575 - Homo sapiens clone 16 immunoglobulin-like transcript 5 mRNA, complete cds.
AF009632 - Homo sapiens clone 17.10 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009634 - Homo sapiens clone 17.6 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF009637 - Homo sapiens clone 19 immunoglobulin-like transcript 5 protein mRNA, complete cds.
AF031553 - Homo sapiens clone DC.1 immunoglobulin-like transcript 5 mRNA, complete cds.
AF031554 - Homo sapiens clone 17.18 immunoglobulin-like transcript 5 mRNA, complete cds.
AF031556 - Homo sapiens clone 17.30 immunoglobulin-like transcript 5 mRNA, complete cds.
JD316755 - Sequence 297779 from Patent EP1572962.
JD437697 - Sequence 418721 from Patent EP1572962.
BC104993 - Homo sapiens leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3, mRNA (cDNA clone MGC:132653 IMAGE:8143996), complete cds.
BC112198 - Homo sapiens leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3, mRNA (cDNA clone MGC:138403 IMAGE:8327666), complete cds.
KJ902188 - Synthetic construct Homo sapiens clone ccsbBroadEn_11582 LILRB3 gene, encodes complete protein.
EU814628 - Homo sapiens immunoglobulin-like transcript 5 antigenic variant 2 mRNA, complete cds.
EU814627 - Homo sapiens immunoglobulin-like transcript 5 antigenic variant 1 mRNA, complete cds.
KC918854 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*04 allele, partial cds.
KC918855 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*05 allele, partial cds.
KC918857 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*07 allele, partial cds.
KC918858 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*08 allele, partial cds.
KC918860 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*10 allele, partial cds.
KC918863 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*13 allele, partial cds.
KC918851 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*01 allele, partial cds.
KC918852 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*02 allele, partial cds.
KC918853 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*03 allele, partial cds.
KC918856 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*06 allele, partial cds.
KC918859 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*09 allele, partial cds.
KC918861 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*11 allele, partial cds.
KC918862 - Homo sapiens LILRB3 (LILRB3) mRNA, LILRB3*12 allele, partial cds.
EU915605 - Homo sapiens leukocyte immunoglobulin-like receptor subfamily B member 3 soluble isoform 3 (LILRB3) mRNA, complete cds, alternatively spliced.
KF294249 - Homo sapiens isolate 15-4-8_36Q LILRA6 (LILRA6) mRNA, partial cds.
KF294246 - Homo sapiens isolate 13-5-8_36Q LILRA6 (LILRA6) mRNA, partial cds.
KF294235 - Homo sapiens isolate 4-07_36Q LILRB3 (LILRB3) mRNA, partial cds.
KF294242 - Homo sapiens isolate 20-4-7 LILRB3 (LILRB3) mRNA, partial cds.
AF344429 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-018 allele, partial cds.
AF344431 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-020 allele, partial cds.
AF344440 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-029 allele, partial cds.
AF344442 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-031 allele, partial cds.
AF344443 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-032 allele, partial cds.
AF344651 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-033 allele, partial cds.
AF041262 - Homo sapiens immunoglobulin-like transcript 8 mRNA, complete cds.
AF344430 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-019 allele, partial cds.
AF344441 - Homo sapiens immunoglobulin-like transcript 5 (LILRB3) mRNA, LILRB3-030 allele, partial cds.
KU159428 - Homo sapiens immunoglobulin-like receptor subfamily A member 5 (LILRA5) mRNA, complete cds.
JD076865 - Sequence 57889 from Patent EP1572962.
JD376632 - Sequence 357656 from Patent EP1572962.
JD261266 - Sequence 242290 from Patent EP1572962.
JD419636 - Sequence 400660 from Patent EP1572962.
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-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04662 - B cell receptor signaling pathway

Reactome (by CSHL, EBI, and GO)

Protein O75022 (Reactome details) participates in the following event(s):

R-HSA-6798743 Exocytosis of secretory granule membrane proteins
R-HSA-199043 LILRs interact with MHC Class I
R-HSA-6798695 Neutrophil degranulation
R-HSA-198933 Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
R-HSA-168249 Innate Immune System
R-HSA-1280218 Adaptive Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: BC028153, C9J1P3, C9JIP1, ENST00000391750.1, ENST00000391750.2, ENST00000391750.3, ENST00000391750.4, ILT5, LIR3, LIRB3_HUMAN, O15471, O75022, Q86U49, uc061coq.1
UCSC ID: ENST00000391750.5
RefSeq Accession: NM_006864
Protein: O75022 (aka LIRB3_HUMAN or LIB3_HUMAN)
CCDS: CCDS33105.1, CCDS46175.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.