Gene Gene information from NCBI Gene database.
Entrez ID 255738
Gene name Proprotein convertase subtilisin/kexin type 9
Gene symbol PCSK9
Synonyms (NCBI Gene)
FH3FHCL3HCHOLA3LDLCQ1NARC-1NARC1PC9
Chromosome 1
Chromosome location 1p32.3
Summary This gene encodes a member of the subtilisin-like proprotein convertase family, which includes proteases that process protein and peptide precursors trafficking through regulated or constitutive branches of the secretory pathway. The encoded protein under
SNPs SNP information provided by dbSNP.
44
SNP ID Visualize variation Clinical significance Consequence
rs509504 A>C,G,T Likely-benign, benign, conflicting-interpretations-of-pathogenicity Non coding transcript variant, synonymous variant, coding sequence variant, missense variant
rs7552471 C>A,T Conflicting-interpretations-of-pathogenicity, likely-benign, benign Non coding transcript variant, synonymous variant, missense variant, coding sequence variant
rs11583680 C>G,T Pathogenic Missense variant, genic upstream transcript variant, upstream transcript variant, coding sequence variant
rs11800243 G>A Conflicting-interpretations-of-pathogenicity, likely-benign, benign Intron variant
rs28362201 G>C,T Uncertain-significance, conflicting-interpretations-of-pathogenicity, likely-benign Genic upstream transcript variant, 5 prime UTR variant, upstream transcript variant
miRNA miRNA information provided by mirtarbase database.
484
miRTarBase ID miRNA Experiments Reference
MIRT018980 hsa-miR-335-5p Microarray 18185580
MIRT023073 hsa-miR-124-3p Microarray 18668037
MIRT024487 hsa-miR-215-5p Microarray 19074876
MIRT026924 hsa-miR-192-5p Microarray 19074876
MIRT499838 hsa-miR-483-5p PAR-CLIP 20371350
Transcription factors Transcription factors information provided by TRRUST V2 database.
3
Transcription factor Regulation Reference
HNF4A Activation 21123766
SREBF1 Activation 17921436
SREBF2 Activation 17448444;17921436;21123766;22288532
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
90
GO ID Ontology Definition Evidence Reference
GO:0001822 Process Kidney development IEA
GO:0001822 Process Kidney development ISS 12552133
GO:0001889 Process Liver development IEA
GO:0001889 Process Liver development ISS 12552133
GO:0001920 Process Negative regulation of receptor recycling IDA 17452316, 22848640
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
607786 20001 ENSG00000169174
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q8NBP7
Protein name Proprotein convertase subtilisin/kexin type 9 (EC 3.4.21.-) (Neural apoptosis-regulated convertase 1) (NARC-1) (Proprotein convertase 9) (PC9) (Subtilisin/kexin-like protease PC9)
Protein function Crucial player in the regulation of plasma cholesterol homeostasis. Binds to low-density lipid receptor family members: low density lipoprotein receptor (LDLR), very low density lipoprotein receptor (VLDLR), apolipoprotein E receptor (LRP1/APOER
PDB 2P4E , 2PMW , 2QTW , 2W2M , 2W2N , 2W2O , 2W2P , 2W2Q , 2XTJ , 3BPS , 3GCW , 3GCX , 3H42 , 3M0C , 3P5B , 3P5C , 3SQO , 4K8R , 4NE9 , 4NMX , 4OV6 , 5OCA , 5VL7 , 5VLA , 5VLH , 5VLK , 5VLL , 5VLP , 6E4Y , 6E4Z , 6MV5 , 6OLZ , 6OM0 , 6OM7 , 6U26 , 6U2F , 6U2N , 6U2P , 6U36 , 6U38 , 6U3I , 6U3X , 7ANQ
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF05922 Inhibitor_I9 77 152 Peptidase inhibitor I9 Domain
PF00082 Peptidase_S8 177 436 Subtilase family Domain
PF18459 PCSK9_C1 449 531 Proprotein convertase subtilisin-like/kexin type 9 C-terminal domain Domain
PF18464 PCSK9_C2 535 600 Proprotein convertase subtilisin-like/kexin type 9 C-terminal domain Domain
PF18463 PCSK9_C3 602 682 Proprotein convertase subtilisin-like/kexin type 9 C-terminal domain Domain
Tissue specificity TISSUE SPECIFICITY: Expressed in neuro-epithelioma, colon carcinoma, hepatic and pancreatic cell lines, and in Schwann cells.
Sequence
Sequence length 692
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Cholesterol metabolism   Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs)
VLDLR internalisation and degradation
Post-translational protein phosphorylation
LDL clearance
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
35
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Cardiovascular phenotype Likely pathogenic; Pathogenic rs137852912, rs794728683, rs564427867 RCV004018541
RCV005384666
RCV005384688
RCV002374503
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Familial hypercholesterolemia Likely pathogenic; Pathogenic rs28942111, rs137852912, rs794728683, rs564427867 RCV005402793
RCV005862692
RCV001526127
RCV000775016
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Homozygous familial hypercholesterolemia Likely pathogenic; Pathogenic rs137852912, rs794728683, rs564427867 RCV004017221
RCV004017461
RCV000825628
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Hypercholesterolemia, autosomal dominant, 3 Likely pathogenic; Pathogenic rs1644681544, rs2100343401, rs28942111, rs28942112, rs137852912, rs794728683, rs564427867 RCV001313945
RCV001450047
RCV000003007
RCV000003008
RCV000003009
View all (4 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
CARDIOVASCULAR DISEASE GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CORONARY ARTERY DISEASE CTD, GWAS catalog
CTD, GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CORONARY ATHEROSCLEROSIS GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Abetalipoproteinemia Abetalipoproteinemia BEFREE 24751931
★☆☆☆☆
Found in Text Mining only
Abetalipoproteinemia Abetalipoproteinemia Pubtator 27179706 Associate
★☆☆☆☆
Found in Text Mining only
Acute Coronary Syndrome Coronary Syndrome BEFREE 25856746, 27665855, 27810295, 28482694, 28865748, 29122809, 29754909, 29885102, 30112872, 30403574, 30605918, 30709868, 31121022, 31206403, 31272931
View all (4 more)
★☆☆☆☆
Found in Text Mining only
Acute lymphocytic leukemia Lymphocytic Leukemia BEFREE 31812013
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of lung (disorder) Lung adenocarcinoma BEFREE 28565798
★☆☆☆☆
Found in Text Mining only
Adenoma Adenoma BEFREE 22359160
★☆☆☆☆
Found in Text Mining only
Adrenocortical carcinoma Adrenocortical carcinoma BEFREE 29650402
★☆☆☆☆
Found in Text Mining only
Adrenoleukodystrophy Adrenoleukodystrophy BEFREE 31748600
★☆☆☆☆
Found in Text Mining only
Adult Acute Lymphocytic Leukemia Lymphocytic Leukemia BEFREE 31812013
★☆☆☆☆
Found in Text Mining only
Agenesis of corpus callosum Agenesis Of Corpus Callosum BEFREE 26061568
★☆☆☆☆
Found in Text Mining only