ENSG00000130164


Homo sapiens

Features
Gene ID: ENSG00000130164
  
Biological name :LDLR
  
Synonyms : LDLR / low density lipoprotein receptor / P01130
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 19
Strand: 1
Band: p13.2
Gene start: 11089362
Gene end: 11133816
  
Corresponding Affymetrix probe sets: 202067_s_at (Human Genome U133 Plus 2.0 Array)   202068_s_at (Human Genome U133 Plus 2.0 Array)   217005_at (Human Genome U133 Plus 2.0 Array)   217103_at (Human Genome U133 Plus 2.0 Array)   217173_s_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000453696
Ensembl peptide - ENSP00000453557
Ensembl peptide - ENSP00000454071
Ensembl peptide - ENSP00000252444
Ensembl peptide - ENSP00000397829
Ensembl peptide - ENSP00000437639
Ensembl peptide - ENSP00000440520
Ensembl peptide - ENSP00000453346
Ensembl peptide - ENSP00000453513
NCBI entrez gene - 3949     See in Manteia.
OMIM - 606945
RefSeq - XM_011528010
RefSeq - NM_000527
RefSeq - NM_001195798
RefSeq - NM_001195799
RefSeq - NM_001195800
RefSeq - NM_001195803
RefSeq Peptide - NP_001182728
RefSeq Peptide - NP_001182732
RefSeq Peptide - NP_000518
RefSeq Peptide - NP_001182727
RefSeq Peptide - NP_001182729
swissprot - J3KMZ9
swissprot - H0YM92
swissprot - H0YMD1
swissprot - P01130
swissprot - A0A024R7D5
swissprot - H0YMQ3
Ensembl - ENSG00000130164
  
Related genetic diseases (OMIM): 143890 - Hypercholesterolemia, familial, 143890
See expression report in BioGPS
See gene description in Wikigenes
See gene description in GeneCards
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 ldlraENSDARG00000029476Danio rerio
 ldlrbENSDARG00000026759Danio rerio
 LdlrENSMUSG00000032193Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
LRP8 / Q14114 / LDL receptor related protein 8ENSG0000015719350
VLDLR / P98155 / very low density lipoprotein receptorENSG0000014785249
LRP1 / Q07954 / LDL receptor related protein 1ENSG0000012338435
LRP1B / Q9NZR2 / LDL receptor related protein 1BENSG0000016870235
LRP4 / O75096 / LDL receptor related protein 4ENSG0000013456935
LRP2 / P98164 / LDL receptor related protein 2ENSG0000008147933
LRP5 / O75197 / LDL receptor related protein 5ENSG0000016233718
LRP6 / O75581 / LDL receptor related protein 6ENSG0000007001817


Protein motifs (from Interpro)
Interpro ID Name
 IPR000033  LDLR class B repeat
 IPR000152  EGF-type aspartate/asparagine hydroxylation site
 IPR000742  EGF-like domain
 IPR001881  EGF-like calcium-binding domain
 IPR002172  Low-density lipoprotein (LDL) receptor class A repeat
 IPR009030  Growth factor receptor cysteine-rich domain superfamily
 IPR011042  Six-bladed beta-propeller, TolB-like
 IPR013032  EGF-like, conserved site
 IPR018097  EGF-like calcium-binding, conserved site
 IPR023415  Low-density lipoprotein (LDL) receptor class A, conserved site
 IPR036055  LDL receptor-like superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0006629 lipid metabolic process TAS
 biological_processGO:0006869 lipid transport IEA
 biological_processGO:0006897 endocytosis TAS
 biological_processGO:0006898 receptor-mediated endocytosis ISS
 biological_processGO:0007616 long-term memory IGI
 biological_processGO:0008202 steroid metabolic process IEA
 biological_processGO:0008203 cholesterol metabolic process IEA
 biological_processGO:0010628 positive regulation of gene expression IEA
 biological_processGO:0010629 negative regulation of gene expression IEA
 biological_processGO:0010867 positive regulation of triglyceride biosynthetic process ISS
 biological_processGO:0010899 regulation of phosphatidylcholine catabolic process ISS
 biological_processGO:0010986 positive regulation of lipoprotein particle clearance ISS
 biological_processGO:0015914 phospholipid transport ISS
 biological_processGO:0016032 viral process IEA
 biological_processGO:0030299 intestinal cholesterol absorption IMP
 biological_processGO:0030301 cholesterol transport TAS
 biological_processGO:0034381 plasma lipoprotein particle clearance TAS
 biological_processGO:0034382 chylomicron remnant clearance TAS
 biological_processGO:0034383 low-density lipoprotein particle clearance IMP
 biological_processGO:0042157 lipoprotein metabolic process IEA
 biological_processGO:0042159 lipoprotein catabolic process IEA
 biological_processGO:0042632 cholesterol homeostasis TAS
 biological_processGO:0045807 positive regulation of endocytosis ISS
 biological_processGO:0046718 viral entry into host cell IEA
 biological_processGO:0050729 positive regulation of inflammatory response IEA
 biological_processGO:0051246 regulation of protein metabolic process IGI
 biological_processGO:0051248 negative regulation of protein metabolic process ISS
 biological_processGO:0061024 membrane organization TAS
 biological_processGO:0061771 response to caloric restriction IGI
 biological_processGO:0061889 negative regulation of astrocyte activation ISS
 biological_processGO:0070508 cholesterol import ISS
 biological_processGO:0071398 cellular response to fatty acid IEA
 biological_processGO:0071404 cellular response to low-density lipoprotein particle stimulus IMP
 biological_processGO:0090118 receptor-mediated endocytosis involved in cholesterol transport IMP
 biological_processGO:0090181 regulation of cholesterol metabolic process IEA
 biological_processGO:0097242 amyloid-beta clearance ISS
 biological_processGO:1900223 positive regulation of amyloid-beta clearance ISS
 biological_processGO:1903979 negative regulation of microglial cell activation ISS
 biological_processGO:1905167 positive regulation of lysosomal protein catabolic process ISS
 biological_processGO:1905907 negative regulation of amyloid fibril formation ISS
 cellular_componentGO:0005615 extracellular space IEA
 cellular_componentGO:0005622 intracellular ISS
 cellular_componentGO:0005764 lysosome IEA
 cellular_componentGO:0005768 endosome IEA
 cellular_componentGO:0005769 early endosome IEA
 cellular_componentGO:0005770 late endosome IEA
 cellular_componentGO:0005794 Golgi apparatus IEA
 cellular_componentGO:0005886 plasma membrane TAS
 cellular_componentGO:0005887 integral component of plasma membrane TAS
 cellular_componentGO:0005905 clathrin-coated pit IDA
 cellular_componentGO:0009897 external side of plasma membrane IDA
 cellular_componentGO:0009986 cell surface IDA
 cellular_componentGO:0010008 endosome membrane TAS
 cellular_componentGO:0016020 membrane IEA
 cellular_componentGO:0016021 integral component of membrane IEA
 cellular_componentGO:0016323 basolateral plasma membrane ISS
 cellular_componentGO:0030669 clathrin-coated endocytic vesicle membrane TAS
 cellular_componentGO:0034362 low-density lipoprotein particle IEA
 cellular_componentGO:0036020 endolysosome membrane TAS
 cellular_componentGO:0036477 somatodendritic compartment IEA
 cellular_componentGO:0043235 receptor complex IDA
 cellular_componentGO:0045177 apical part of cell ISS
 cellular_componentGO:0097443 sorting endosome IEA
 cellular_componentGO:1990666 PCSK9-LDLR complex IDA
 molecular_functionGO:0001540 amyloid-beta binding IEA
 molecular_functionGO:0001618 virus receptor activity IEA
 molecular_functionGO:0002020 protease binding IPI
 molecular_functionGO:0005041 low-density lipoprotein particle receptor activity IMP
 molecular_functionGO:0005509 calcium ion binding IEA
 molecular_functionGO:0005515 protein binding IEA
 molecular_functionGO:0030169 low-density lipoprotein particle binding IMP
 molecular_functionGO:0030229 very-low-density lipoprotein particle receptor activity IDA
 molecular_functionGO:0032050 clathrin heavy chain binding TAS
 molecular_functionGO:0042802 identical protein binding IPI


Pathways (from Reactome)
Pathway description
Cargo recognition for clathrin-mediated endocytosis
Clathrin-mediated endocytosis
Chylomicron clearance
LDL clearance
Retinoid metabolism and transport


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000006 Autosomal dominant inheritance "A mode of inheritance that is observed for traits related to a gene encoded on one of the autosomes (i.e., the human chromosomes 1-22) in which a trait manifests in heterozygotes. In the context of medical genetics, an autosomal dominant disorder is caused when a single copy of the mutant allele is present. Males and females are affected equally, and can both transmit the disorder with a risk of 50% for each child of inheriting the mutant allele." [HPO:curators]
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 HP:0000799 Fatty kidneys 
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 HP:0000822 Hypertension "High blood pressure." [HPO:curators]
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 HP:0001084 Corneal arcus "A hazy, grayish-white ring about 2 mm in width located close to but separated from the limbus (the corneoscleral junction). Corneal arcus generally occurs bilaterally, and is related to lipid deposition in the cornea. Corneal arcus can occur in elderly persons as a part of the aging process but may be associated with hypercholesterolemia in people under the age of 50 years." [HPO:curators]
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 HP:0001114 Xanthelasma "The presence of xanthomata in the skin of the eyelid." [HPO:curators]
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 HP:0001138 Optic neuropathy 
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 HP:0001397 Hepatic steatosis 
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 HP:0001645 Sudden cardiac death 
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 HP:0001653 Mitral regurgitation "An `abnormality of the mitral valve` (HP:0001633) characterized by insufficiency or incompetence of the mitral valve resulting in retrograde leaking of blood through the mitral valve upon ventricular contraction." [HPO:probinson]
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 HP:0001658 Myocardial infarction 
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 HP:0001681 Angina pectoris 
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 HP:0001920 Renal artery stenosis 
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 HP:0002094 Dyspnea 
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 HP:0002829 Arthralgia 
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 HP:0003077 Hyperlipidemia 
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 HP:0003124 Hypercholesterolemia 
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 HP:0003141 Increased beta-lipoproteins "An increase in the blood concentration of beta lipoprotein, which is a low-density lipoprotein involved in the blood transport of cholesterol." [HPO:curators]
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 HP:0004381 Supravalvular aortic stenosis 
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 HP:0004416 Precocious atherosclerosis 
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 HP:0004950 Peripheral arterial disease 
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 HP:0004963 Calcifications of the aorta 
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 HP:0005162 Impaired left ventricular function 
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 HP:0005177 Premature arteriosclerosis 
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 HP:0005181 Premature coronary artery disease 
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 HP:0006693 Myocardial steatosis 
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 HP:0007201 Cerebral artery atherosclerosis 
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 HP:0010874 Tendon xanthomatosis "The presence of xanthomas (intra-and extra-cellular accumulations of cholesterol) extensor tendons (typically over knuckles, Achilles tendon, knee, and elbows)." [HPO:probinson]
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 HP:0012373 Abnormal eye physiology "A functional anomaly of the `eye` (FMA:54448)." [HPO:probinson]
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 HP:0012397 Aortic atherosclerosis "The presence of atheromas or atherosclerotic plaques in the `aorta` (FMA:3734)." [HPO:probinson, pmid:16818829]
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 HP:0012638 Abnormality of nervous system physiology "A functional anomaly of the `nervous system` (FMA:7157)." [HPO:probinson]
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 HP:0030148 Heart murmur "An extra or unusual sound heard during a heartbeat caused vibrations resulting from the flow of blood through the heart." [HPO:probinson]
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 HP:0030882 Coronary artery dilation 
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 HP:3000062 Abnormality of internal carotid artery "An abnormality of an internal carotid artery." [GOC:TermGenie]
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSG00000122705 CLTA / P09496 / clathrin light chain A  / reaction / complex
 ENSG00000169174 PCSK9 / Q8NBP7 / proprotein convertase subtilisin/kexin type 9  / complex / reaction
 ENSG00000157978 Q5SW96 / LDLRAP1 / low density lipoprotein receptor adaptor protein 1  / complex / reaction
 ENSG00000130203 APOE / P02649 / apolipoprotein E  / reaction / complex
 ENSG00000153071 DAB2 / P98082 / DAB2, clathrin adaptor protein  / reaction / complex
 ENSG00000042753 AP2S1 / P53680 / adaptor related protein complex 2 sigma 1 subunit  / reaction / complex
 ENSG00000161203 AP2M1 / Q96CW1 / adaptor related protein complex 2 mu 1 subunit  / complex / reaction
 ENSG00000141367 CLTC / Q00610 / clathrin heavy chain  / reaction / complex
 ENSG00000183020 AP2A2 / O94973 / adaptor related protein complex 2 alpha 2 subunit  / reaction / complex
 ENSG00000196961 AP2A1 / O95782 / adaptor related protein complex 2 alpha 1 subunit  / complex / reaction
 ENSG00000006125 AP2B1 / P63010 / adaptor related protein complex 2 beta 1 subunit  / complex / reaction






 

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