Human Gene OLR1 (ENST00000309539.8_7) from GENCODE V47lift37
  Description: oxidized low density lipoprotein receptor 1, transcript variant 1 (from RefSeq NM_002543.4)
Gencode Transcript: ENST00000309539.8_7
Gencode Gene: ENSG00000173391.9_10
Transcript (Including UTRs)
   Position: hg19 chr12:10,310,900-10,324,731 Size: 13,832 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr12:10,312,479-10,324,676 Size: 12,198 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:10,310,900-10,324,731)mRNA (may differ from genome)Protein (273 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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MalacardsMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: OLR1_HUMAN
DESCRIPTION: RecName: Full=Oxidized low-density lipoprotein receptor 1; Short=Ox-LDL receptor 1; AltName: Full=C-type lectin domain family 8 member A; AltName: Full=Lectin-like oxidized LDL receptor 1; Short=LOX-1; Short=Lectin-like oxLDL receptor 1; Short=hLOX-1; AltName: Full=Lectin-type oxidized LDL receptor 1; Contains: RecName: Full=Oxidized low-density lipoprotein receptor 1, soluble form;
FUNCTION: Receptor that mediates the recognition, internalization and degradation of oxidatively modified low density lipoprotein (oxLDL) by vascular endothelial cells. OxLDL is a marker of atherosclerosis that induces vascular endothelial cell activation and dysfunction, resulting in pro-inflammatory responses, pro- oxidative conditions and apoptosis. Its association with oxLDL induces the activation of NF-kappa-B through an increased production of intracellular reactive oxygen and a variety of pro- atherogenic cellular responses including a reduction of nitric oxide (NO) release, monocyte adhesion and apoptosis. In addition to binding oxLDL, it acts as a receptor for the HSP70 protein involved in antigen cross-presentation to naive T-cells in dendritic cells, thereby participating in cell-mediated antigen cross-presentation. Also involved in inflammatory process, by acting as a leukocyte-adhesion molecule at the vascular interface in endotoxin-induced inflammation. Also acts as a receptor for advanced glycation end (AGE) products, activated platelets, monocytes, apoptotic cells and both Gram-negative and Gram- positive bacteria.
SUBUNIT: Homodimer; disulfide-linked. May form a hexamer composed of 3 homodimers. Interacts with HSP70.
SUBCELLULAR LOCATION: Cell membrane; Single-pass type II membrane protein. Secreted. Note=A secreted form also exists.
TISSUE SPECIFICITY: Expressed at high level in endothelial cells and vascular-rich organs such as placenta, lung, liver and brain, aortic intima, bone marrow, spinal cord and substantia nigra. Also expressed at the surface of dendritic cells. Widely expressed at intermediate and low level.
INDUCTION: By inflammatory cytokines such as TNF, IFNG/IFN-gamma, IL6/interleukin-6 and by pathological conditions such as hyperlipidemia, hypertension and diabetes mellitus. Up-regulated in atherosclerotic lesions, by oxLDL, reactive oxygen species and fluid shear stress, suggesting that it may participate in amplification of oxLDL-induced vascular dysfunction.
DOMAIN: The cytoplasmic region is required for subcellular sorting on the cell surface.
DOMAIN: The C-type lectin domain mediates the recognition and binding of oxLDL.
PTM: The intrachain disulfide-bonds prevent N-glycosylation at some sites.
PTM: N-glycosylated.
DISEASE: Note=Independent association genetic studies have implicated OLR1 gene variants in myocardial infarction susceptibility.
DISEASE: Note=OLR1 may be involved in Alzheimer disease (AD). Involvement in AD is however unclear: according to some authors (PubMed:12354387, PubMed:12810610 and PubMed:15976314), variations in OLR1 modify the risk of AD, while according to other (PubMed:15000751 and PubMed:15060104) they do not.
SIMILARITY: Contains 1 C-type lectin domain.
WEB RESOURCE: Name=Functional Glycomics Gateway - Glycan Binding; Note=Oxidized LDL receptor; URL="http://www.functionalglycomics.org/glycomics/GBPServlet?&operationType=view&cbpId=cbp_hum_Ctlect_249";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: OLR1
Diseases sorted by gene-association score: myocardial infarction* (300), atherosclerosis (27), mental retardation, x-linked, snyder-robinson type (8), alzheimer disease (5), vascular disease (3)
* = Manually curated disease association

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 21.12 RPKM in Lung
Total median expression: 71.70 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  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 -7.4055-0.135 Picture PostScript Text
3' UTR -333.701579-0.211 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
IPR001304 - C-type_lectin
IPR016186 - C-type_lectin-like
IPR016187 - C-type_lectin_fold

Pfam Domains:
PF00059 - Lectin C-type domain
PF08391 - Ly49-like protein, N-terminal region

SCOP Domains:
56436 - C-type lectin-like
58010 - Fibrinogen coiled-coil and central regions

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1YPO - X-ray MuPIT 1YPQ - X-ray MuPIT 1YPU - X-ray MuPIT 1YXJ - X-ray MuPIT 1YXK - X-ray MuPIT 3VLG - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P78380
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0030246 carbohydrate binding
GO:0042802 identical protein binding

Biological Process:
GO:0002376 immune system process
GO:0006508 proteolysis
GO:0006954 inflammatory response
GO:0007155 cell adhesion
GO:0008015 blood circulation
GO:0043312 neutrophil degranulation
GO:0050900 leukocyte migration

Cellular Component:
GO:0005576 extracellular region
GO:0005654 nucleoplasm
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0035579 specific granule membrane
GO:0043231 intracellular membrane-bounded organelle
GO:0043235 receptor complex
GO:0045121 membrane raft
GO:0070821 tertiary granule membrane


-  Descriptions from all associated GenBank mRNAs
  AB010710 - Homo sapiens mRNA for lectin-like oxidized LDL receptor, complete cds.
AX429248 - Sequence 3 from Patent WO0235236.
BC022295 - Homo sapiens oxidized low density lipoprotein (lectin-like) receptor 1, mRNA (cDNA clone MGC:22491 IMAGE:4722086), complete cds.
JD562053 - Sequence 543077 from Patent EP1572962.
JD263034 - Sequence 244058 from Patent EP1572962.
JD110656 - Sequence 91680 from Patent EP1572962.
AF035776 - Homo sapiens oxidized low-density lipoprotein receptor mRNA, complete cds.
JD091057 - Sequence 72081 from Patent EP1572962.
JD049311 - Sequence 30335 from Patent EP1572962.
JD549433 - Sequence 530457 from Patent EP1572962.
JD041874 - Sequence 22898 from Patent EP1572962.
JD113463 - Sequence 94487 from Patent EP1572962.
AK292124 - Homo sapiens cDNA FLJ75778 complete cds, highly similar to Homo sapiens oxidised low density lipoprotein (lectin-like) receptor 1 (OLR1), mRNA.
JD474314 - Sequence 455338 from Patent EP1572962.
AK308009 - Homo sapiens cDNA, FLJ97957.
JD556875 - Sequence 537899 from Patent EP1572962.
AK316353 - Homo sapiens cDNA, FLJ79252 complete cds, weakly similar to Oxidized low-density lipoprotein receptor 1.
JD241411 - Sequence 222435 from Patent EP1572962.
JD130690 - Sequence 111714 from Patent EP1572962.
AK295409 - Homo sapiens cDNA FLJ50964 complete cds, highly similar to Oxidized low-density lipoprotein receptor 1.
AK298040 - Homo sapiens cDNA FLJ52117 complete cds, highly similar to Oxidized low-density lipoprotein receptor 1.
AB102861 - Homo sapiens OLR1 mRNA for oxidised low density lipoprotein (lectin-like) receptor 1, complete cds.
CU692540 - Synthetic construct Homo sapiens gateway clone IMAGE:100022190 5' read OLR1 mRNA.
KJ891723 - Synthetic construct Homo sapiens clone ccsbBroadEn_01117 OLR1 gene, encodes complete protein.
KR711235 - Synthetic construct Homo sapiens clone CCSBHm_00021339 OLR1 (OLR1) mRNA, encodes complete protein.
DQ891409 - Synthetic construct clone IMAGE:100004039; FLH176655.01X; RZPDo839F10122D oxidised low density lipoprotein (lectin-like) receptor 1 (OLR1) gene, encodes complete protein.
DQ894585 - Synthetic construct Homo sapiens clone IMAGE:100009045; FLH176651.01L; RZPDo839F10121D oxidised low density lipoprotein (lectin-like) receptor 1 (OLR1) gene, encodes complete protein.
AB590414 - Synthetic construct DNA, clone: pFN21AE1554, Homo sapiens OLR1 gene for oxidized low density lipoprotein (lectin-like) receptor 1, without stop codon, in Flexi system.
BC055085 - Homo sapiens cDNA clone IMAGE:4619390, partial cds.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P78380 (Reactome details) participates in the following event(s):

R-HSA-203130 OLR1 binds to oxidized LDL
R-HSA-6799350 Exocytosis of specific granule membrane proteins
R-HSA-6798747 Exocytosis of tertiary granule membrane proteins
R-HSA-202733 Cell surface interactions at the vascular wall
R-HSA-6798695 Neutrophil degranulation
R-HSA-109582 Hemostasis
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A8K7V9, B4DI48, CLEC8A, ENST00000309539.1, ENST00000309539.2, ENST00000309539.3, ENST00000309539.4, ENST00000309539.5, ENST00000309539.6, ENST00000309539.7, G3V1I4, LOX1, NM_002543, OLR1_HUMAN, P78380, Q2PP00, Q7Z484, uc317onz.1, uc317onz.2
UCSC ID: ENST00000309539.8_7
RefSeq Accession: NM_002543.4
Protein: P78380 (aka OLR1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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