Aliases for LRP3 Gene

Aliases for LRP3 Gene

  • LDL Receptor Related Protein 3 2 3 5
  • 105 KDa Low-Density Lipoprotein Receptor-Related Protein 3 4
  • Low-Density Lipoprotein Receptor-Related Protein 3 3 4
  • HLRp105 3 4
  • LRP-3 3 4
  • Low Density Lipoprotein Receptor-Related Protein 3 2
  • CTD-2540B15.13 3

External Ids for LRP3 Gene

Previous GeneCards Identifiers for LRP3 Gene

  • GC19P034303
  • GC19P034134
  • GC19P038361
  • GC19P038377
  • GC19P033685
  • GC19P030187

Summaries for LRP3 Gene

GeneCards Summary for LRP3 Gene

LRP3 (LDL Receptor Related Protein 3) is a Protein Coding gene. Diseases associated with LRP3 include 3-Methylglutaconic Aciduria, Type I. An important paralog of this gene is LRP12.

UniProtKB/Swiss-Prot Summary for LRP3 Gene

  • Probable receptor, which may be involved in the internalization of lipophilic molecules and/or signal transduction. Its precise role is however unclear, since it does not bind to very low density lipoprotein (VLDL) or to LRPAP1 in vitro.

Gene Wiki entry for LRP3 Gene

Additional gene information for LRP3 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LRP3 Gene

Genomics for LRP3 Gene

GeneHancer (GH) Regulatory Elements for LRP3 Gene

Promoters and enhancers for LRP3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J033175 Promoter/Enhancer 2.2 FANTOM5 Ensembl ENCODE CraniofacialAtlas 502 -0.9 -902 3.8 FOXK2 HNRNPK ZBTB40 ZNF217 EP300 CTCF ZSCAN5C SIN3A TCF12 NRF1 LRP3 ENSG00000267054 HSALNG0125414 TRT-AGT1-3 lnc-SLC7A10-1 GPATCH1 CEP89 ZNF507 LSM14A PDCD5
GH19J033194 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 504.9 +17.3 17301 2.6 POLR2G USF1 ZFX ZIC2 REST ZBTB10 ZNF423 GABPA ZBTB26 KLF7 LRP3 GPATCH1 CEP89 WDR88 ENSG00000273420 ENSG00000267054
GH19J033339 Enhancer 0.6 Ensembl 11.7 +162.1 162098 1 OSR2 ZNF195 FOS STAT3 ZSCAN5A ZNF624 ZNF664 HNF4A SETDB1 KLF14 RPS3AP50 CEBPG SLC7A10 LRP3 CHST8 lnc-CEBPA-3
GH19J033340 Enhancer 0.6 Ensembl 11.7 +163.3 163298 1 ZNF148 SALL2 MCM5 CEBPG ZNF521 ZNF416 ZNF571 ZNF366 ZNF544 ZNF512 RPS3AP50 GPATCH1 ZNF507 CEBPG CEP89 SLC7A10 LRP3 FAAP24 PDCD5 CHST8
GH19J033208 Enhancer 0.5 Ensembl 4.9 +31.0 30997 1.2 TAF15 HIC1 POLR2A HNF4A AGO2 PRDM10 RXRA SP1 ENSG00000273420 WDR88 LRP3 ENSG00000267714 SLC7A10
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRP3 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LRP3

Top Transcription factor binding sites by QIAGEN in the LRP3 gene promoter:
  • ATF6
  • E47
  • Egr-2
  • Hand1
  • HNF-4alpha1
  • HNF-4alpha2
  • Pax-5
  • PPAR-gamma1
  • PPAR-gamma2
  • RREB-1

Genomic Locations for LRP3 Gene

Genomic Locations for LRP3 Gene
31,265 bases
Plus strand
31,265 bases
Plus strand

Genomic View for LRP3 Gene

Genes around LRP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRP3 Gene

Proteins for LRP3 Gene

  • Protein details for LRP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Low-density lipoprotein receptor-related protein 3
    Protein Accession:
    Secondary Accessions:
    • B3KQD6
    • B4DKF2

    Protein attributes for LRP3 Gene

    770 amino acids
    Molecular mass:
    82884 Da
    Quaternary structure:
    • Binds GGA1 and GGA2.
    • Sequence=BAG51998.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAG59164.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for LRP3 Gene

Post-translational modifications for LRP3 Gene

  • Glycosylation at Asn71, Asn199, and Asn359
  • Modification sites at PhosphoSitePlus

Other Protein References for LRP3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LRP3 Gene

Domains & Families for LRP3 Gene

Gene Families for LRP3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for LRP3 Gene

  • CUB domain
  • Low density lipoprotein-receptor, class A

Suggested Antigen Peptide Sequences for LRP3 Gene

GenScript: Design optimal peptide antigens:
  • 105 kDa low-density lipoprotein receptor-related protein (LRP3_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the LDLR family.
  • Belongs to the LDLR family.
genes like me logo Genes that share domains with LRP3: view

Function for LRP3 Gene

Molecular function for LRP3 Gene

UniProtKB/Swiss-Prot Function:
Probable receptor, which may be involved in the internalization of lipophilic molecules and/or signal transduction. Its precise role is however unclear, since it does not bind to very low density lipoprotein (VLDL) or to LRPAP1 in vitro.
GENATLAS Biochemistry:
low density lipoprotein receptor related protein 3,LDLR superfamily

Phenotypes From GWAS Catalog for LRP3 Gene

genes like me logo Genes that share phenotypes with LRP3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LRP3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRP3 Gene

Localization for LRP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRP3 Gene

Membrane; Single-pass type I membrane protein. Membrane, coated pit.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LRP3 gene
Compartment Confidence
plasma membrane 3
extracellular 3
cytoskeleton 1
mitochondrion 1
nucleus 1
endosome 1
cytosol 1
lysosome 1
golgi apparatus 1
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Lipid droplets (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LRP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005905 clathrin-coated pit IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA,TAS --
genes like me logo Genes that share ontologies with LRP3: view

Pathways & Interactions for LRP3 Gene

PathCards logo

SuperPathways for LRP3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006897 endocytosis IEA --
GO:0006898 receptor-mediated endocytosis TAS 9693042
genes like me logo Genes that share ontologies with LRP3: view

No data available for Pathways by source and SIGNOR curated interactions for LRP3 Gene

Drugs & Compounds for LRP3 Gene

(1) Drugs for LRP3 Gene - From: ApexBio

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
COG 133 Pharma ApoE mimetic peptide, ApoE peptide fragment 0

(1) ApexBio Compounds for LRP3 Gene

Compound Action Cas Number
COG 133 ApoE mimetic peptide 514200-66-9
genes like me logo Genes that share compounds with LRP3: view

Drug Products

Transcripts for LRP3 Gene

mRNA/cDNA for LRP3 Gene

12 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRP3 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7
SP1: -
SP2: -

Relevant External Links for LRP3 Gene

GeneLoc Exon Structure for

Expression for LRP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRP3 Gene

Protein differential expression in normal tissues from HIPED for LRP3 Gene

This gene is overexpressed in Bone marrow stromal cell (66.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LRP3 Gene

Protein tissue co-expression partners for LRP3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LRP3

SOURCE GeneReport for Unigene cluster for LRP3 Gene:


mRNA Expression by UniProt/SwissProt for LRP3 Gene:

Tissue specificity: Widely expressed. Highly expressed in skeletal muscle and ovary. Expressed at intermediate level in heart, brain, liver, pancreas, prostate and small intestine. Weakly expressed in testis, colon and leukocyte.

Evidence on tissue expression from TISSUES for LRP3 Gene

  • Nervous system(4.7)
  • Muscle(4.3)
genes like me logo Genes that share expression patterns with LRP3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRP3 Gene

Orthologs for LRP3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LRP3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LRP3 31 30
  • 99.09 (n)
(Bos Taurus)
Mammalia LRP3 31 30
  • 88.69 (n)
(Rattus norvegicus)
Mammalia Lrp3 30
  • 86.28 (n)
(Mus musculus)
Mammalia Lrp3 17 31 30
  • 86.09 (n)
(Canis familiaris)
Mammalia LRP3 31
  • 86 (a)
(Monodelphis domestica)
Mammalia LRP3 31
  • 65 (a)
(Ornithorhynchus anatinus)
Mammalia LRP3 31
  • 62 (a)
(Gallus gallus)
Aves LRP3 31 30
  • 66.57 (n)
(Anolis carolinensis)
Reptilia LRP3 31
  • 71 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia lrp3 30
  • 66.67 (n)
(Danio rerio)
Actinopterygii lrp3 30
  • 69.8 (n)
LRP3 31
  • 54 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG6553 31
  • 22 (a)
(Caenorhabditis elegans)
Secernentea M03E7.4 31
  • 18 (a)
(Triticum aestivum)
Liliopsida Ta.14 30
Species where no ortholog for LRP3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for LRP3 Gene

Gene Tree for LRP3 (if available)
Gene Tree for LRP3 (if available)
Evolutionary constrained regions (ECRs) for LRP3: view image

Paralogs for LRP3 Gene

Paralogs for LRP3 Gene

(2) SIMAP similar genes for LRP3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with LRP3: view

Variants for LRP3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LRP3 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
717088 Benign: not provided 33,207,570(+) T/A MISSENSE_VARIANT
729824 Benign: not provided 33,205,520(+) C/T SYNONYMOUS_VARIANT
rs3745974 - p.Val708Ala
rs3745978 - p.Pro213Leu

Additional dbSNP identifiers (rs#s) for LRP3 Gene

Structural Variations from Database of Genomic Variants (DGV) for LRP3 Gene

Variant ID Type Subtype PubMed ID
dgv1769n106 CNV deletion 24896259
esv24627 CNV loss 19812545
nsv1071529 CNV deletion 25765185
nsv1077340 CNV duplication 25765185
nsv833808 CNV loss 17160897
nsv953277 CNV deletion 24416366

Variation tolerance for LRP3 Gene

Residual Variation Intolerance Score: 30.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.62; 56.57% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRP3 Gene

Disorders for LRP3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LRP3 Gene - From: DISEASES

Disorder Aliases PubMed IDs
3-methylglutaconic aciduria, type i
  • mgca1
- elite association - COSMIC cancer census association via MalaCards
Search LRP3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LRP3

genes like me logo Genes that share disorders with LRP3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LRP3 Gene

Publications for LRP3 Gene

  1. cDNA cloning of a new low-density lipoprotein receptor-related protein and mapping of its gene (LRP3) to chromosome bands 19q12-q13. 2. (PMID: 9693042) Ishii H … Yamamoto TT (Genomics 1998) 2 3 4 23 54
  2. Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries. (PMID: 16303743) Otsuki T … Isogai T (DNA research : an international journal for rapid publication of reports on genes and genomes 2005) 3 4 54
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54
  5. Chromosomal localization of human genes for the LDL receptor family member glycoprotein 330 (LRP2) and its associated protein RAP (LRPAP1). (PMID: 7959795) Korenberg JR … Argraves WS (Genomics 1994) 2 3 54

Products for LRP3 Gene

Sources for LRP3 Gene