Human Gene SCARB1 (ENST00000261693.11_10) from GENCODE V47lift37
  Description: scavenger receptor class B member 1, transcript variant 19 (from RefSeq NR_160423.1)
Gencode Transcript: ENST00000261693.11_10
Gencode Gene: ENSG00000073060.17_18
Transcript (Including UTRs)
   Position: hg19 chr12:125,261,402-125,348,410 Size: 87,009 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr12:125,267,229-125,348,266 Size: 81,038 Coding Exon Count: 12 

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 (chr12:125,261,402-125,348,410)mRNA (may differ from genome)Protein (509 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SCRB1_HUMAN
DESCRIPTION: RecName: Full=Scavenger receptor class B member 1; Short=SRB1; AltName: Full=CD36 and LIMPII analogous 1; Short=CLA-1; AltName: Full=CD36 antigen-like 1; AltName: Full=Collagen type I receptor, thrombospondin receptor-like 1; AltName: Full=SR-BI; AltName: CD_antigen=CD36;
FUNCTION: Receptor for different ligands such as phospholipids, cholesterol ester, lipoproteins, phosphatidylserine and apoptotic cells. Probable receptor for HDL, located in particular region of the plasma membrane, called caveolae. Facilitates the flux of free and esterified cholesterol between the cell surface and extracellular donors and acceptors, such as HDL and to a lesser extent, apoB-containing lipoproteins and modified lipoproteins. Probably involved in the phagocytosis of apoptotic cells, via its phosphatidylserine binding activity. Receptor for hepatitis C virus glycoprotein E2. Binding between SCARB1 and E2 was found to be independent of the genotype of the viral isolate. Plays an important role in the uptake of HDL cholesteryl ester (By similarity).
SUBUNIT: Plays a critical role in HCV attachment and/or cell entry by interacting with HCV E1/E2 glycoproteins heterodimer. The C- terminal region binds to PDZK1 (By similarity).
INTERACTION: P55345:PRMT2; NbExp=1; IntAct=EBI-78657, EBI-78458;
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein. Membrane, caveola; Multi-pass membrane protein. Note=Predominantly localized to cholesterol and sphingomyelin-enriched domains within the plasma membrane, called caveolae.
TISSUE SPECIFICITY: Widely expressed.
PTM: N-glycosylated.
PTM: The six cysteines of the extracellular domain are all involved in intramolecular disulfide bonds (By similarity).
POLYMORPHISM: Genetic variations in SCARB1 define the high density lipoprotein cholesterol level quantitative trait locus 6 (HDLCQ16) [MIM:610762].
SIMILARITY: Belongs to the CD36 family.

-  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: SCARB1
Diseases sorted by gene-association score: hepatitis c (70), hepatitis (36), hepatitis c virus (20), hyperalphalipoproteinemia (13), mental retardation, x-linked, snyder-robinson type (12), neutrophil-specific granule deficiency (10), specific granule deficiency (9), cholelithiasis (8), phencyclidine abuse (6), rapp-hodgkin syndrome (5), myocardial infarction (1)

-  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: 281.55 RPKM in Adrenal Gland
Total median expression: 799.28 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 -65.00144-0.451 Picture PostScript Text
3' UTR -633.201731-0.366 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
IPR002159 - CD36
IPR005428 - CD36_antigen

Pfam Domains:
PF01130 - CD36 family

ModBase Predicted Comparative 3D Structure on Q8WTV0
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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:0001530 lipopolysaccharide binding
GO:0001540 beta-amyloid binding
GO:0001618 virus receptor activity
GO:0001786 phosphatidylserine binding
GO:0001875 lipopolysaccharide receptor activity
GO:0005044 scavenger receptor activity
GO:0005215 transporter activity
GO:0005515 protein binding
GO:0005545 1-phosphatidylinositol binding
GO:0008035 high-density lipoprotein particle binding
GO:0030169 low-density lipoprotein particle binding
GO:0034185 apolipoprotein binding
GO:0034186 apolipoprotein A-I binding
GO:0042803 protein homodimerization activity
GO:0070506 high-density lipoprotein particle receptor activity

Biological Process:
GO:0001935 endothelial cell proliferation
GO:0006702 androgen biosynthetic process
GO:0006707 cholesterol catabolic process
GO:0006869 lipid transport
GO:0006898 receptor-mediated endocytosis
GO:0006910 phagocytosis, recognition
GO:0010595 positive regulation of endothelial cell migration
GO:0010867 positive regulation of triglyceride biosynthetic process
GO:0010886 positive regulation of cholesterol storage
GO:0010899 regulation of phosphatidylcholine catabolic process
GO:0015914 phospholipid transport
GO:0015920 lipopolysaccharide transport
GO:0016032 viral process
GO:0030301 cholesterol transport
GO:0031663 lipopolysaccharide-mediated signaling pathway
GO:0032497 detection of lipopolysaccharide
GO:0033344 cholesterol efflux
GO:0034375 high-density lipoprotein particle remodeling
GO:0034383 low-density lipoprotein particle clearance
GO:0034384 high-density lipoprotein particle clearance
GO:0035461 vitamin transmembrane transport
GO:0042060 wound healing
GO:0042632 cholesterol homeostasis
GO:0043534 blood vessel endothelial cell migration
GO:0043654 recognition of apoptotic cell
GO:0043691 reverse cholesterol transport
GO:0044406 adhesion of symbiont to host
GO:0046718 viral entry into host cell
GO:0050764 regulation of phagocytosis
GO:0050892 intestinal absorption
GO:0051000 positive regulation of nitric-oxide synthase activity
GO:0070328 triglyceride homeostasis
GO:0070508 cholesterol import

Cellular Component:
GO:0005737 cytoplasm
GO:0005765 lysosomal membrane
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0005901 caveola
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030666 endocytic vesicle membrane
GO:0031528 microvillus membrane
GO:0043231 intracellular membrane-bounded organelle
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  Z22555 - H.sapiens encoding CLA-1 mRNA.
BC022087 - Homo sapiens scavenger receptor class B, member 1, mRNA (cDNA clone IMAGE:3010672), with apparent retained intron.
BC080647 - Homo sapiens scavenger receptor class B, member 1, mRNA (cDNA clone MGC:99530 IMAGE:6576008), complete cds.
BC093732 - Homo sapiens scavenger receptor class B, member 1, mRNA (cDNA clone MGC:120767 IMAGE:7939577), complete cds.
BC112037 - Homo sapiens scavenger receptor class B, member 1, mRNA (cDNA clone MGC:138242 IMAGE:8327505), complete cds.
BC143319 - Homo sapiens scavenger receptor class B, member 1, mRNA (cDNA clone MGC:176841 IMAGE:9051824), complete cds.
AF515445 - Homo sapiens scavenger receptor class B type III mRNA, complete cds.
AB209436 - Homo sapiens mRNA for Scavenger receptor class B member 1 variant protein.
AK124112 - Homo sapiens cDNA FLJ42118 fis, clone TESTI2005610, highly similar to Scavenger receptor class B member 1.
AK302779 - Homo sapiens cDNA FLJ55139 complete cds, highly similar to Scavenger receptor class B member 1.
AK304730 - Homo sapiens cDNA FLJ61086 complete cds, highly similar to Scavenger receptor class B member 1.
KU177964 - Homo sapiens scavenger receptor class B member 1 isoform 1 (SCARB1) mRNA, partial cds, alternatively spliced.
KU177965 - Homo sapiens scavenger receptor class B member 1 isoform 2 (SCARB1) mRNA, complete cds, alternatively spliced.
DQ892837 - Synthetic construct clone IMAGE:100005467; FLH190165.01X; RZPDo839F0375D scavenger receptor class B, member 1 (SCARB1) gene, encodes complete protein.
DQ896083 - Synthetic construct Homo sapiens clone IMAGE:100010543; FLH190161.01L; RZPDo839F0365D scavenger receptor class B, member 1 (SCARB1) gene, encodes complete protein.
KJ901323 - Synthetic construct Homo sapiens clone ccsbBroadEn_10717 SCARB1 gene, encodes complete protein.
KR710270 - Synthetic construct Homo sapiens clone CCSBHm_00010986 SCARB1 (SCARB1) mRNA, encodes complete protein.
BC034322 - Homo sapiens scavenger receptor class B, member 1, mRNA (cDNA clone IMAGE:4779572), with apparent retained intron.
JD307246 - Sequence 288270 from Patent EP1572962.
JD194501 - Sequence 175525 from Patent EP1572962.
JD242384 - Sequence 223408 from Patent EP1572962.
JD270716 - Sequence 251740 from Patent EP1572962.
JD282101 - Sequence 263125 from Patent EP1572962.
JD367108 - Sequence 348132 from Patent EP1572962.
JD249152 - Sequence 230176 from Patent EP1572962.
JD270891 - Sequence 251915 from Patent EP1572962.
JD477074 - Sequence 458098 from Patent EP1572962.
JD477770 - Sequence 458794 from Patent EP1572962.
JD415862 - Sequence 396886 from Patent EP1572962.
JD129931 - Sequence 110955 from Patent EP1572962.
JD264213 - Sequence 245237 from Patent EP1572962.
JD200715 - Sequence 181739 from Patent EP1572962.
JD515340 - Sequence 496364 from Patent EP1572962.
JD453179 - Sequence 434203 from Patent EP1572962.
JD501345 - Sequence 482369 from Patent EP1572962.
JD387382 - Sequence 368406 from Patent EP1572962.
JD191022 - Sequence 172046 from Patent EP1572962.
JD104501 - Sequence 85525 from Patent EP1572962.
JD051126 - Sequence 32150 from Patent EP1572962.
JD469904 - Sequence 450928 from Patent EP1572962.
AF254409 - Homo sapiens scavenger receptor class B type III SR-BIII mRNA, partial cds.
JD025767 - Sequence 6791 from Patent EP1572962.
JD029837 - Sequence 10861 from Patent EP1572962.

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

Protein Q8WTV0 (Reactome details) participates in the following event(s):

R-HSA-349637 spherical HDL and SR-BI receptor form a complex at the cell surface
R-HSA-2197646 SCARB1 (SR-BI, CLA-1) binds ligands
R-HSA-349638 Disassembly of SR-BI-bound spherical HDL
R-HSA-8964011 HDL clearance
R-HSA-3000471 Scavenging by Class B Receptors
R-HSA-8964043 Plasma lipoprotein clearance
R-HSA-2173782 Binding and Uptake of Ligands by Scavenger Receptors
R-HSA-174824 Plasma lipoprotein assembly, remodeling, and clearance
R-HSA-5653656 Vesicle-mediated transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: CD36L1, CLA1, ENST00000261693.1, ENST00000261693.10, ENST00000261693.2, ENST00000261693.3, ENST00000261693.4, ENST00000261693.5, ENST00000261693.6, ENST00000261693.7, ENST00000261693.8, ENST00000261693.9, F8W8N0, NR_160423, Q14016, Q52LZ5, Q6KFX4, Q8WTV0, SCRB1_HUMAN, uc317gsn.1, uc317gsn.2
UCSC ID: ENST00000261693.11_10
RefSeq Accession: NM_005505.5
Protein: Q8WTV0 (aka SCRB1_HUMAN or SRC1_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.