Format

Send to:

Choose Destination

MSR1 macrophage scavenger receptor 1 [ Homo sapiens (human) ]

Gene ID: 4481, updated on 1-Jun-2020

Summary

Official Symbol
MSR1provided by HGNC
Official Full Name
macrophage scavenger receptor 1provided by HGNC
Primary source
HGNC:HGNC:7376
See related
Ensembl:ENSG00000038945 MIM:153622
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SRA; SR-A; CD204; SR-AI; phSR1; phSR2; SCARA1; SR-AII; SR-AIII
Summary
This gene encodes the class A macrophage scavenger receptors, which include three different types (1, 2, 3) generated by alternative splicing of this gene. These receptors or isoforms are macrophage-specific trimeric integral membrane glycoproteins and have been implicated in many macrophage-associated physiological and pathological processes including atherosclerosis, Alzheimer's disease, and host defense. The isoforms type 1 and type 2 are functional receptors and are able to mediate the endocytosis of modified low density lipoproteins (LDLs). The isoform type 3 does not internalize modified LDL (acetyl-LDL) despite having the domain shown to mediate this function in the types 1 and 2 isoforms. It has an altered intracellular processing and is trapped within the endoplasmic reticulum, making it unable to perform endocytosis. The isoform type 3 can inhibit the function of isoforms type 1 and type 2 when co-expressed, indicating a dominant negative effect and suggesting a mechanism for regulation of scavenger receptor activity in macrophages. [provided by RefSeq, Jul 2008]
Expression
Broad expression in lung (RPKM 26.5), gall bladder (RPKM 9.7) and 19 other tissues See more
Orthologs

Genomic context

See MSR1 in Genome Data Viewer
Location:
8p22
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 8 NC_000008.11 (16107878..16192791, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (15965387..16050300, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene protein phosphatase, Mg2+/Mn2+ dependent 1A pseudogene 1 Neighboring gene ribosomal protein L32 pseudogene 19 Neighboring gene chaperonin containing TCP1 subunit 3 pseudogene 1 Neighboring gene uncharacterized LOC101929028 Neighboring gene mitochondrial ribosomal protein L49 pseudogene 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
amyloid-beta binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
amyloid-beta binding ISS
Inferred from Sequence or Structural Similarity
more info
 
cargo receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
low-density lipoprotein particle binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
low-density lipoprotein particle binding ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
scavenger receptor activity TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
amyloid-beta clearance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
amyloid-beta clearance ISS
Inferred from Sequence or Structural Similarity
more info
 
cholesterol transport ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
negative regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
phagocytosis, engulfment ISS
Inferred from Sequence or Structural Similarity
more info
 
plasma lipoprotein particle clearance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma lipoprotein particle clearance ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
positive regulation of cholesterol storage IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of cholesterol storage ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of macrophage derived foam cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
receptor-mediated endocytosis ISS
Inferred from Sequence or Structural Similarity
more info
 
receptor-mediated endocytosis NAS
Non-traceable Author Statement
more info
PubMed 
receptor-mediated endocytosis TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
collagen trimer IEA
Inferred from Electronic Annotation
more info
 
endocytic vesicle membrane TAS
Traceable Author Statement
more info
 
integral component of membrane NAS
Non-traceable Author Statement
more info
PubMed 
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
low-density lipoprotein particle IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
macrophage scavenger receptor types I and II
Names
macrophage acetylated LDL receptor I and II
macrophage scavenger receptor type III
scavenger receptor class A member 1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_012102.1 RefSeqGene

    Range
    5141..89911
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001363744.1NP_001350673.1  macrophage scavenger receptor types I and II isoform 4

    Status: REVIEWED

    Source sequence(s)
    AC023396, AK293217, BC063878
    Consensus CDS
    CCDS87581.1
    Related
    ENSP00000405453.2, ENST00000445506.6
    Conserved Domains (4) summary
    pfam01391
    Location:298352
    Collagen; Collagen triple helix repeat (20 copies)
    smart00202
    Location:368468
    SR; Scavenger receptor Cys-rich
    pfam03523
    Location:139187
    Macscav_rec; Macrophage scavenger receptor
    cl26252
    Location:122287
    AAA_13; AAA domain
  2. NM_002445.4NP_002436.1  macrophage scavenger receptor types I and II isoform type 2

    See identical proteins and their annotated locations for NP_002436.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (SR-AII), also known as phSR2, uses two alternative exons and also lacks two downstream exons compared to variant SR-AI. These differences causes an alternate 3' end in the coding region, and has a distinct 3' UTR. It encodes isoform type 2 that is shorter and has a different C-terminus than isoform type 1.
    Source sequence(s)
    AC023396, D90188
    Consensus CDS
    CCDS5997.1
    UniProtKB/Swiss-Prot
    P21757
    Related
    ENSP00000371428.4, ENST00000381998.8
    Conserved Domains (2) summary
    pfam01391
    Location:280334
    Collagen; Collagen triple helix repeat (20 copies)
    pfam03523
    Location:121169
    Macscav_rec; Macrophage scavenger receptor
  3. NM_138715.3NP_619729.1  macrophage scavenger receptor types I and II isoform type 1

    See identical proteins and their annotated locations for NP_619729.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (SR-AI), also known as phSR1, encodes the longest isoform.
    Source sequence(s)
    AC023396, D90187, DA995755
    Consensus CDS
    CCDS5995.1
    UniProtKB/Swiss-Prot
    P21757
    Related
    ENSP00000262101.5, ENST00000262101.10
    Conserved Domains (4) summary
    pfam01391
    Location:280334
    Collagen; Collagen triple helix repeat (20 copies)
    smart00202
    Location:350450
    SR; Scavenger receptor Cys-rich
    pfam03523
    Location:121169
    Macscav_rec; Macrophage scavenger receptor
    cl26252
    Location:104269
    AAA_13; AAA domain
  4. NM_138716.2NP_619730.1  macrophage scavenger receptor types I and II isoform type 3

    See identical proteins and their annotated locations for NP_619730.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (SR-AIII) lacks an exon in the coding region, but maintains the same reading frame, as compared to variant SR-AI. It encodes an isoform type 3 that lacks 63 internal amino acids compared to isoform type 1.
    Source sequence(s)
    AC023396, D90187, DA995755
    Consensus CDS
    CCDS5996.1
    UniProtKB/Swiss-Prot
    P21757
    Related
    ENSP00000262100.3, ENST00000350896.3
    Conserved Domains (4) summary
    pfam01391
    Location:280334
    Collagen; Collagen triple helix repeat (20 copies)
    smart00202
    Location:346387
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:318387
    SRCR; Scavenger receptor cysteine-rich domain
    pfam03523
    Location:121169
    Macscav_rec; Macrophage scavenger receptor

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p13 Primary Assembly

    Range
    16107878..16192791 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024447161.1XP_024302929.1  macrophage scavenger receptor types I and II isoform X2

    Conserved Domains (3) summary
    pfam01391
    Location:298352
    Collagen; Collagen triple helix repeat (20 copies)
    pfam03523
    Location:139187
    Macscav_rec; Macrophage scavenger receptor
    cl26252
    Location:122287
    AAA_13; AAA domain
Support Center